Publications 2025:

• Metabolic modelling reveals the aging-associated decline of host-microbiome metabolic interactions in mice.
  Best L, Dost T, Esser D, Flor S, Gamarra AM, Haase M, Kadibalban AS, Marinos G, Walker A, Zimmermann J, Simon R, Schmidt S, Taubenheim J, Künzel S, Häsler R, Franzenburg S, Groth M, Waschina S, Rosenstiel P, Sommer F, Witte OW, Schmitt-Kopplin P, Baines JF, Frahm C, Kaleta C
  Nat Microbiol 2025, 10(4), 973-91
  
• Integrative multiomic approaches reveal ZMAT3 and p21 as conserved hubs in the p53 tumor suppression network.
  Boutelle AM, Mabene AR, Yao D, Xu H, Wang M, Tang YJ, Lopez SS, Sinha S, Demeter J, Cheng R, Benard BA, McCrea EM, Valente LJ, Drainas AP, Fischer M, Majeti R, Petrov DA, Jackson PK, Yang F, Winslow MM, Bassik MC, Attardi LD
  Cell Death Differ 2025 (epub ahead of print)
  
• Cross-species comparison reveals that Hmga1 reduces H3K27me3 levels to promote cardiomyocyte proliferation and cardiac regeneration.
  Bouwman M, de Bakker DEM, Honkoop H, Giovou AE, Versteeg D, Boender AR, Nguyen PD, Slotboom M, Colquhoun D, Vigil-Garcia M, Kooijman L, Janssen R, Hooijkaas IB, Günthel M, Visser KJ, Klerk M, Zentilin L, Giacca M, Kaslin J, Boink GJJ, van Rooij E, Christoffels VM, Bakkers J
  Nat Cardiovasc Res 2025, 4(1), 64-82
  
• Rapid brain tumor classification from sparse epigenomic data.
  Brändl B, Steiger M, Kubelt C, Rohrandt C, Zhu Z, Evers M, Wang G, Schuldt B, Afflerbach AK, Wong D, Lum A, Halldorsson S, Djirackor L, Leske H, Magadeeva S, Smičius R, Quedenau C, Schmidt NO, Schüller U, Vik-Mo EO, Proescholdt M, Riemenschneider MJ, Zadeh G, Ammerpohl O, Yip S, Synowitz M, van Bömmel** A, Kretzmer** H, Müller** FJ
  Nat Med 2025, 31(3), 840-8 ** co-corresponding authors
  
• The microcephaly-associated protein YIPF5 differentially regulates ER-export
  Bruno F, Anitei M, Di Fraia D, Durso W, Dau T, Cirri E, Sannai M, Valkova C, Maldutyte J, A.Miller E, Rubio I, Garloff V, Kersten N, Farias G, Ori A, Mestres I, Calegari F, Kaether C
  bioRxiv 2025, https://doi.org/10.1101/2025.06.
  
• Age-dependent decline in sperm quality and function in a naturally short-lived vertebrate.
  Cattelan** S, Valenzano** DR
  BMC Ecol Evol 2025, 25(1), 2 ** co-corresponding authors
  
• Nerve Growth Factor Receptor (NGFR/p75NTR) of the Small-Spotted Catshark (Scyliorhinus canicula): Evolutionary Conservation and Brain Function.
  Chiavacci E, Camera R, Costa M, Fronte B, Tozzini ET, Cellerino A
  J Comp Neurol 2025, 533(4), e70049
  
• Wilms' tumor 1 impairs apoptotic clearance of fibroblasts in distal fibrotic lung lesions.
  Ediga HH, Vemulapalli CP, Sontake V, Patel PK, Miyazaki H, Popov D, Jensen MB, Jegga AG, Huang SK, Englert C, Schedl A, Gupta N, McCormack FX, Madala SK
  J Clin Invest 2025 (epub ahead of print)
  
• AnchoRNA: Full virus genome alignments through conserved anchor regions
  Eulenfeld** T, Triebel S, Marz** M
  bioRxiv 2025, https://doi.org/10.1101/2025.01. ** co-corresponding authors
  
• p53 reveals principles of chromatin remodeling and enhancer activation.
  Fischer M, Schwarz* R, Riege* K, Förste S, Schwab K, Wiechens E, van Bömmel A, Hoffmann S
  Nucleic Acids Res 2025, 53(11) * equal contribution
  
• Microglia and CD8+ T cell activation precede neuronal loss in a murine model of spastic paraplegia 15.
  Frolov A, Huang H, Schütz D, Köhne M, Blank-Stein N, Osei-Sarpong C, Büttner M, Elmzzahi T, Khundadze M, Zahid M, Reuter M, Becker M, De Domenico E, Bonaguro L, Kallies A, Morrison H, Hübner CA, Händler K, Stumm R, Mass E, Beyer MD
  J Exp Med 2025, 222(7)
  
• Subtyping Burkitt Lymphoma by DNA Methylation.
  Glaser S, Wagener R, Kretzmer H, López C, Baptista MJ, Bens S, Bernhart S, Bhatia K, Borkhardt A, Elgaafary S, Hoffmann S, Hübschmann D, Hummel M, Klapper W, Kolarova J, Kreuz M, Lazzi S, Löffler M, Navarro JT, Neequaye J, Onyango N, Onyuma T, Ott G, Radlwimmer B, Rohde M, Rosenwald A, Rosolowski M, Schlesner M, Szczepanowski M, Tapia G, Wößmann W, Küppers R, Trümper L, Leoncini L, Lichter P, Del Val C, Ammerpohl O, Burkhardt B, Mbulaiteye SM, Siebert R, ICGC MMML‐Seq Consortium MMML Project
  Genes Chromosomes Cancer 2025, 64(4), e70042
  
• Attenuated growth factor signaling during cell death initiation sensitizes membranes towards peroxidation.
  Gollowitzer A, Pein H, Rao Z, Waltl L, Bereuter L, Loeser K, Meyer T, Jafari V, Witt F, Winkler R, Su F, Große S, Thürmer M, Grander J, Hotze M, Harder S, Espada L, Magnutzki A, Gstir R, Weinigel C, Rummler S, Bonn G, Pachmayr J, Ermolaeva M, Harayama T, Schlüter H, Kosan C, Heller R, Thedieck K, Schmitt M, Shimizu T, Popp J, Shindou H, Kwiatkowski M, Koeberle A
  Nat Commun 2025, 16(1), 1774
  
• How I diagnose and treat patients in the pre-fibrotic phase of primary myelofibrosis (pre-PMF) - practical approaches of a German expert panel discussion in 2024.
  Griesshammer M, Al-Ali HK, Eckardt JN, Fiegl M, Göthert J, Jentsch-Ullrich K, Koschmieder S, Kvasnicka HM, Reiter A, Schmidt B, Heidel FH
  Ann Hematol 2025 (epub ahead of print)
  
• Prediction of resistance to hydroxyurea therapy in patients with polycythemia vera: a machine learning study (PV-AIM) validated in a prospective interventional phase IV trial (HU-F-AIM).
  Heidel* FH, De Stefano V, Zaiss M, Kisro J, Gückel E, Großer S, Zuurman MW, Manz K, Bryan K, Afsharinejad A, Griesshammer M, Kiladjian JJ
  Leukemia 2025, 39(7), 1692-701 * corresponding author
  
• Novel translational mouse models of metabolic dysfunction-associated steatotic liver disease comparable to human MASLD with severe obesity.
  Hupa-Breier KL, Schenk H, Campos-Murguia A, Wellhöner F, Heidrich B, Dywicki J, Hartleben B, Böker C, Mall J, Terkamp C, Wilkens L, Becker F, Rudolph KL, Manns MP, Mederacke YS, Marhenke S, Redeker H, Lieber M, Iordanidis K, Taubert R, Wedemeyer H, Noyan F, Hardtke-Wolenski M, Jaeckel E
  Mol Metab 2025 (epub ahead of print)
  
• Cell-free DNA for detection and monitoring of extramedullary AML relapse.
  Hupe HC, Wienecke CP, Bartels S, Schipper E, Leßmann J, Lasch A, Bader M, Gabdoulline R, Neugebohren M, Dammann E, Kreipe HH, Lehmann U, Bergmann AK, Di Donato N, Stadler M, Eder M, Ganser A, Heidel FH, Thol F, Heuser M
  Hemasphere 2025, 9(3), e70097
  
• Fetal-like reversion in the regenerating intestine is regulated by mesenchymal asporin.
  Iqbal S, Andersson S, Nesta E, Pentinmikko N, Kumar A, Kumar Jha S, Borshagovski D, Webb A, Gebert N, Viitala EW, Ritchie A, Scharaw S, Kuuluvainen E, Larsen HL, Saarinen T, Juuti A, Ristimäki A, Jeltsch M, Ori A, Varjosalo M, Pietiläinen KH, Ollila S, Jensen KB, Oudhoff MJ, Katajisto P
  Cell Stem Cell 2025, 32(4), 613-626.e8
  
• Convergent evolution of a fungal effector enabling phagosome membrane penetration
  Jia LJ, Alexander Bernal F, Söhnlein J, Sonnberger J, Heineking I, Rafiq M, Cseresnyés Z, Kage F, Schmidt F, Zaher R, Hortschansky P, Chaudhary S, Gong X, Schirawski J, Thilo Figge M, Hube B, A.Brakhage A
  bioRxiv 2025, https://doi.org/10.1101/2025.03.
  
• Sparse keypoint segmentation of lung fissures: efficient geometric deep learning for abstracting volumetric images.
  Kaftan P, Heinrich MP, Hansen L, Rasche V, Kestler HA, Bigalke A
  INT J COMPUT ASS RAD 2025 (epub ahead of print)
  
• Neuronal autophagy in the control of synapse function.
  Karpova A, Hiesinger PR, Kuijpers M, Albrecht A, Kirstein J, Andres-Alonso M, Biermeier A, Eickholt BJ, Mikhaylova M, Maglione M, Montenegro-Venegas C, Sigrist SJ, Gundelfinger ED, Haucke V, Kreutz MR
  Neuron 2025, 113(7), 974-90
  
• The evolving landscape of epigenetic target molecules and therapies in myeloid cancers: focus on acute myeloid leukemia and myeloproliferative neoplasms.
  Kühn MWM, Pemmaraju N, Heidel FH
  Leukemia 2025 (epub ahead of print)
  
• Pathogenesis and management of high molecular risk myeloproliferative neoplasms.
  Ling VY, Heidel FH, Bywater MJ
  Haematologica 2025, 110(4), 863-76
  
• Oncogenic FLT3 internal tandem duplications (ITD) and CD45/PTPRC control osteoclast functions and bone microarchitecture.
  Lossius-Cott C, Annoh A, Bens M, Nietzsche S, Hoffmann B, Figge MT, Rauner M, Hofbauer LC, Müller JP
  JBMR Plus 2025, 9(3), ziae173
  
• Lonafarnib Partially Reverses Cardiac Senescence in Human and Mouse Progeria Models via Autophagy Activation
  M.Monteiro L, R.Pitrez P, Correia-Santos S, Dark N, Santinha D, Aveleira C, Townsend M, Taylor J, Nissan X, Sardão V, Cortes L, Mitter R, Marino A, Sousa-Soares C, Ribeiro R, C.Smith J, Logarinho E, Ori A, S.Bernardo A, Ferreira L
  bioRxiv 2025, https://doi.org/10.1101/2025.06.
  
• Comparison of recognition of symptom burden in MPN between patient- and physician-reported assessment - an intraindividual analysis by the German Study Group for MPN (GSG-MPN).
  Manz K, Heidel FH, Koschmieder S, Schlag R, Lipke J, Stegelmann F, Griesshammer M, Klausmann M, Crodel C, Hochhaus A, Schulz H, Göthert JR, Al-Ali H, Becker H, Reiter A, Beutel G, Kricheldorf K, Brümmendorf TH, Hoffmann W, Döhner K, Isfort S, German Study Group for Myeloproliferative Neoplasms (GSG-MPN)
  Leukemia 2025, 39(4), 864-75
  
• Infection and herbicide exposure implicate c-Abl kinase in α-Synuclein Ser129 phosphorylation
  Marzieh E, Zeyang S, Alvaro QO, Gesa R, Mahdi R, David H, Saskia FE, Thomas FM
  bioRxiv 2025, https://doi.org/10.1101/2025.01.
  
• Analysis of different strains of the turquoise killifish identify transcriptomic signatures associated with heritable lifespan differences.
  Mazzetto M, Reichwald K, Koch P, Groth M, Cellerino A
  J Gerontol A Biol Sci Med Sci 2025 (epub ahead of print)
  
• Prognostic impact of clonal representation of myelodysplasia-related gene mutations in acute myeloid leukemia.
  Mecklenbrauck R, Borchert N, Gabdoulline R, Poll P, Funke C, Brandes M, Dallmann LK, Fiedler W, Krauter J, Trummer A, Hertenstein B, Müller M, Lübbert M, Schwalenberg M, Voss A, Di Donato N, Bergmann A, Gaidzik V, Döhner K, Döhner H, Ganser A, Heidel FH, Thol FR, Heuser M
  Leukemia 2025, 39(7), 1773-7
  
• diffONT: predicting methylation-specific PCR biomarkers based on nanopore sequencing data for clinical application
  Meyer** D, Barth E, Wiehle L, Marz** M
  bioRxiv 2025, https://doi.org/10.1101/2025.02. ** co-corresponding authors
  
• The protein deacetylase HDAC10 controls DNA replication in malignant lymphoid cells.
  Mieland AO, Petrosino G, Dejung M, Chen JX, Fulzele A, Mahmoudi F, Tu JW, Mustafa AHM, Zeyn Y, Hieber C, Bros M, Schnöder TM, Heidel FH, Najafi S, Oehme I, Hofmann I, Schutkowski M, Hilscher S, Kosan C, Butter F, Bhatia S, Sippl W, Krämer OH
  Leukemia 2025 (epub ahead of print)
  
• Signatures of Nonlinear Aging: Molecular Stages of Life: Sudden Changes During Aging as Potential Biomarkers for an Age Classification System.
  Olecka** M, Morrison H, Hoffmann** S
  Bioessays 2025 (epub ahead of print) ** co-corresponding authors
  
• Machine Learning and Omic Data for Prediction of Health and Chronic Diseases
  Olenik M, Dönertaş HM
  In: Encyclopedia of Bioinformatics and Computational Biology (edited by Shoba R, Mario C, Asif MK) 2025, 6, 365-388, Elsevier, Amsterdam
  
• iSODA: A Comprehensive Tool for Integrative Omics Data Analysis in Single- and Multi-Omics Experiments.
  Olivier-Jimenez D, Derks RJE, Harari O, Cruchaga C, Ali M, Ori A, Di Fraia D, Cabukusta B, Henrie A, Giera M, Mohammed Y
  Anal Chem 2025 (epub ahead of print)
  
• Protecting cell cycle integrity: enhanced start-codon stringency in mitosis.
  Omrani O, Siniuk K, Fischer M
  Signal Transduct Target Ther 2025, 10(1), 34
  
• Impact of calreticulin mutations on treatment and survival outcomes in myelofibrosis during ruxolitinib therapy.
  Palandri F, Branzanti F, Morsia E, Dedola A, Benevolo G, Tiribelli M, Beggiato E, Farina M, Martino B, Caocci G, Pugliese N, Tieghi A, Crugnola M, Binotto G, Cavazzini F, Abruzzese E, Isidori A, Scalzulli E, D'Agostino D, Caserta S, Nardo A, Lemoli RM, Cilloni D, Bocchia M, Pane F, Heidel FH, Palumbo GA, Breccia M, Elli EM, Bonifacio M
  Ann Hematol 2025, 104(1), 241-51
  
• Embryonic macrophages orchestrate niche cell homeostasis for the establishment of the definitive hematopoietic stem cell pool.
  Perçin** G, Riege K, Fröbel J, Metz J, Culemann S, Lesche M, Reinhardt S, Höfer T, Hoffmann S, Waskow** C
  Nat Commun 2025, 16(1), 4428 ** co-corresponding authors
  
• Malignant JAK-signaling: at the interface of inflammation and malignant transformation.
  Perner F, Pahl HL, Zeiser R, Heidel FH
  Leukemia 2025 (epub ahead of print)
  
• Biogeochemical function of slicks in coastal surface waters of the Baltic Sea
  Peter C, Giebel HA, Clark Chai B, S.G.Serafim T, Lehners C, Wurl O, Osterholz H, Rahlff J
  bioRxiv 2025, https://doi.org/10.1101/2025.06.
  
• Replication stress responses in human lymphocytes change sex-specifically during aging.
  Rall-Scharpf M, Schlotter D, Koch P, Szafranski K, Groth M, Sahm A, Biber S, Castaño BA, Heitmeir B, Zengerling F, Deniz M, Dallmeier D, Braig S, Bonig H, Milyavsky M, Pospiech H, Wiesmüller L
  Nucleic Acids Res 2025, 53(11)
  
• Mesenchymal Stromal Cells regulate human Hematopoietic Stem Cell survival, engraftment and regeneration via PGE2/cAMP signaling pathway
  Sai Naga Anurag Muddineni S, Katz Even C, Zipin-Roitman A, Rasoulouniriana D, Singha Roy D, Aborgies R, Beider K, Raz Y, Solomon N, Hershkovitz G, Shulman Y, Chen R, Weizman E, Waskow C, Nagler A, Milyavsky M
  bioRxiv 2025, https://doi.org/10.1101/2023.11.
  
• Genetic- and culture-based tools for studying Bacteroides fragilis.
  Schnizlein MK, Dubey AA, Fiebig A, Crosson S
  Microbiol Resour Announc 2025 (epub ahead of print)
  
• Anti-CD19 CAR-T cell therapy for acquired hemophilia A.
  Schultze-Florey CR, Thol FR, Aleksandrova K, Stoyanov K, Gutierrez Jauregui R, Arseniev L, Leise J, Klöß S, Heidel** FH, Tiede** A
  Leukemia 2025, 39(4), 980-2 ** co-corresponding authors
  
• A novel prognostic risk model for patients with refractory/relapsed acute myeloid leukemia receiving venetoclax plus hypomethylating agents.
  Shahswar R, Gabdoulline R, Krueger K, Wichmann M, Götze KS, Braitsch K, Meggendorfer M, Schmalbrock L, Bullinger L, Modemann F, Fiedler W, Krauter J, Kaun S, Rotermund S, Voß A, Behrens YL, Bergmann AK, Koller E, Beutel G, Thol F, Heidel F, Heuser M
  Leukemia 2025, 39(3), 614-22
  
• Enhancer Hijacking Discovery in Acute Myeloid Leukemia by Pyjacker Identifies MNX1 Activation via Deletion 7q.
  Sollier E, Riedel A, Toprak UH, Wierzbinska JA, Weichenhan D, Schmid JP, Hakobyan M, Touzart A, Jahn E, Vick B, Brown-Burke F, Kelly K, Kelekçi S, Pejkovska A, Goyal A, Bähr M, Breuer K, Chen MJM, Llamazares-Prada M, Hartmann M, Schönung M, Correia N, Trumpp A, Abdullah Y, Klingmüller U, Mughal SS, Brors B, Westermann F, Ulrich E, Autry RJ, Schlesner M, Vosberg S, Herold T, Greif PA, Pfeifer D, Lübbert M, Fischer T, Heidel FH, Gebhard C, Walter W, Haferlach T, Eisfeld AK, Mrózek K, Nicolet D, Bullinger L, Smeenk L, Erpelinck-Verschueren C, Mulet-Lazaro R, Delwel R, Ernst A, Scherer M, Lutsik P, Jeremias I, Döhner K, Döhner H, Lipka DB, Plass C
  BLOOD CANCER DISCOV 2025, 6(4), 343-63
  
• The RMaP challenge of predicting RNA modifications by nanopore sequencing.
  Spangenberg J, Mündnich S, Busch A, Pastore S, Wierczeiko A, Goettsch W, Dietrich V, Pryszcz LP, Cruciani S, Novoa EM, Joshi K, Perera R, Di Giorgio S, Arrubarrena P, Tellioglu I, Poon CL, Wan YK, Göke J, Hildebrandt A, Dieterich** C, Helm** M, Marz** M, Gerber** S, Alagna** N
  Commun Chem 2025, 8(1), 115 ** co-corresponding authors
  
• Age-dependent gut microbiota dynamics and their association with male fitness traits in Drosophila melanogaster
  Sultanova** * Z, Dönertaş** * HM, Hita A, Aguilar P, Dag B, Ignacio Lucas-Lledo J, Latorre A, Carazo P
  bioRxiv 2025, https://doi.org/10.1101/2025.05. * equal contribution, ** co-senior authors
  
• First full-genome alignment representative for the genus Pestivirus
  Triebel S, Eulenfeld T, Ontiveros-Palacios N, Sweeney B, Tautz N, Marz M
  bioRxiv 2025, https://doi.org/10.1101/2025.05.
  
• Dynamics of HBV biomarkers during nucleos(t)ide analog treatment: A 14-year study.
  van Bömmel F, Degasperi E, van Bömmel A, Facchetti F, Sambarino D, Deichsel D, Brehm J, Kamga Wouambo R, Maier M, Pfefferkorn M, Berg T, Lampertico P
  Hepatol Commun 2025, 9(6)
  
• Author Correction: Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
  Vromman M, Anckaert J, Bortoluzzi S, Buratin A, Chen CY, Chu Q, Chuang TJ, Dehghannasiri R, Dieterich C, Dong X, Flicek P, Gaffo E, Gu W, He C, Hoffmann S, Izuogu O, Jackson MS, Jakobi T, Lai EC, Nuytens J, Salzman J, Santibanez-Koref M, Stadler P, Thas O, Vanden Eynde E, Verniers K, Wen G, Westholm J, Yang L, Ye CY, Yigit N, Yuan GH, Zhang J, Zhao F, Vandesompele J, Volders PJ
  Nat Methods 2025 (epub ahead of print)
  
• "Yin-Yang" of PARP1 in genotoxic and inflammatory response.
  Wang S, Wu Y, Zong W, Wang ZQ
  DNA Repair (Amst) 2025 (epub ahead of print)
  
• Characterization of Hospital Admissions During Immune Checkpoint Inhibitor Therapy: Insights From the ICOG Study.
  Wiegmann JP, Fröhlich T, Möhn N, Duzzi L, Narten E, Aurich J, Thomas J, Grote-Levi L, Mahjoub S, Berliner D, Wirth T, Golpon H, Bollmann BA, Von Wasilewski I, Gutzmer R, Heidel FH, Skripuletz T, Beutel G, Ivanyi P, ICOG‐CCCH (Immune Cooperative Oncology Group Comprehensive Cancer Center Hannover)
  Cancer Med 2025, 14(3), e70582
  
• Emerging roles of transfer RNA fragments in the CNS.
  Winek** K, Soreq** H
  Brain 2025 (epub ahead of print) ** co-corresponding authors
  
• DNA damage response and genomic instability disorder: Meeting report of the 20th Ataxia-Telangiectasia Workshop (ATW-2024) in conjunction with the 15th international symposium on DNA damage response and human disease (isDDRHD-2024).
  Xia Y, Wang** ZQ, Xu** X
  DNA Repair (Amst) 2025 (epub ahead of print) ** co-corresponding authors
  

Publications 2024:

• INHBA is enriched in HPV-negative oropharyngeal squamous cell carcinoma and promotes cancer progression.
  Abou Kors T, Hofmann L, Betzler A, Payer K, Bens M, Truong J, von Witzleben A, Thomas J, Kraus JM, Kalaajieh R, Huber D, Ezić J, Benckendorff J, Greve J, Schuler PJ, Ottensmeier CH, Kestler HA, Hoffmann TK, Theodoraki MN, Brunner C, Laban S
  Cancer Res Commun 2024, 4(2), 571-87
  
• Multi-omics analysis of overexpressed tumor-associated proteins: gene expression, immunopeptide presentation, and antibody response in oropharyngeal squamous cell carcinoma, with a focus on cancer-testis antigens.
  Abou Kors T, Meier M, Mühlenbruch L, Betzler AC, Oliveri F, Bens M, Thomas J, Kraus JM, Doescher J, von Witzleben A, Hofmann L, Ezic J, Huber D, Benckendorff J, Barth TFE, Greve J, Schuler PJ, Brunner C, Blackburn JM, Hoffmann TK, Ottensmeier C, Kestler HA, Rammensee HG, Walz JS, Laban S
  Front Immunol 2024, 15, 1408173
  
• Correction: IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport.
  Anitei M, Bruno F, Valkova C, Dau T, Cirri E, Mestres I, Calegari F, Kaether C
  Cell Mol Life Sci 2024, 81(1), 465
  
• Hormesis as an adaptive response to infection.
  Bauer M, Ermolaeva M, Singer M, Wetzker R, Soares MP
  Trends Mol Med 2024, 30(7), 633-41
  
• Prospective study validating a multidimensional treatment decision score predicting the 24-month outcome in untreated patients with clinically isolated syndrome and early relapsing-remitting multiple sclerosis, the ProVal-MS study.
  Bayas A, Mansmann U, Ön BI, Hoffmann VS, Berthele A, Mühlau M, Kowarik MC, Krumbholz M, Senel M, Steuerwald V, Naumann M, Hartberger J, Kerschensteiner M, Oswald E, Ruschil C, Ziemann U, Tumani H, Vardakas I, Albashiti F, Kramer F, Soto-Rey I, Spengler H, Mayer G, Kestler HA, Kohlbacher O, Hagedorn M, Boeker M, Kuhn K, Buchka S, Kohlmayer F, Kirschke JS, Behrens L, Zimmermann H, Bender B, Sollmann N, Havla J, Hemmer B, ProVal-MS study group
  Neurol Res Pract 2024, 6(1), 15
  
• Introducing a machine learning algorithm for delirium prediction-the Supporting SURgery with GEriatric Co-Management and AI project (SURGE-Ahead).
  Benovic S, Ajlani AH, Leinert C, Fotteler M, Wolf D, Steger F, Kestler H, Dallmeier D, Denkinger M, Eschweiler GW, Thomas C, Kocar TD
  Age Ageing 2024, 53(5), afae101
  
• Metabolic modeling reveals the aging-associated decline of host-microbiome metabolic interactions in mice
  Best L, Dost T, Esser D, Flor S, Haase M, Kadibalban AS, Marinos G, Walker A, Zimmermann J, Simon R, Schmidt S, Taubenheim J, Künzel S, Häsler R, Groth M, Waschina S, W.Witte O, Schmitt-Kopplin P, F.Baines J, Frahm C, Kaleta C
  bioRxiv 2024, https://doi.org/10.1101/2024.03.
  
• [Genetics, epigenetics, and environmental factors in life expectancy-What role does nature-versus-nurture play in aging?].
  Bierhoff H
  Bundesgesundheitsblatt Gesundheitsforschung Gesundheitsschutz 2024, 67(5), 521-7
  
• RNA:DNA triplexes: a mechanism for epigenetic communication between hosts and microbes?
  Bierhoff* H, Barber* AE, Blango* MG
  mBio 2024, 15(10), e0198224 * equal contribution
  
• Imetelstat-mediated alterations in fatty acid metabolism to induce ferroptosis as a therapeutic strategy for acute myeloid leukemia.
  Bruedigam C, Porter AH, Song A, Vroeg In de Wei G, Stoll T, Straube J, Cooper L, Cheng G, Kahl VFS, Sobinoff AP, Ling VY, Jebaraj BMC, Janardhanan Y, Haldar R, Bray LJ, Bullinger L, Heidel FH, Kennedy GA, Hill MM, Pickett HA, Abdel-Wahab O, Hartel G, Lane SW
  Nat Cancer 2024, 5(1), 47-65
  
• Combined analysis of a serum mRNA/miRNA marker signature and CA 19-9 for timely and accurate diagnosis of recurrence after resection of pancreatic ductal adenocarcinoma: A prospective multicenter cohort study.
  Buchholz M, Lausser L, Schenk M, Earl J, Lawlor RT, Scarpa A, Sanjuanbenito A, Carrato A, Malats N, Tjaden C, Giese NA, Büchler M, Hackert T, Kestler HA, Gress TM, BioPaC consortium
  UNITED EUR GASTROENT 2024 (epub ahead of print)
  
• Cilia defects upon loss of WDR4 are linked to proteasomal hyperactivity and ubiquitin shortage.
  Burkhalter MD, Stiff T, Maerz LD, Casar Tena T, Wiese H, Gerhards J, Sailer SA, Vu LAT, Duong Phu M, Donow C, Alupei M, Iben S, Groth M, Wiese S, Church JA, Jeggo PA, Philipp M
  Cell Death Dis 2024, 15(9), 660
  
• Gut microbiome in atypical depression.
  Busch A, Roy S, Helbing DL, Colic L, Opel N, Besteher B, Walter M, Bauer M, Refisch A
  J Affect Disord 2024, 349, 277-85
  
• The Aging Synapse: An Integrated Proteomic And Transcriptomic Analysis
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  Cell Death Dis 2024, 15(10), 780
  
• An artificial intelligence-assisted clinical framework to facilitate diagnostics and translational discovery in hematologic neoplasia.
  Tang M, Antić Ž, Fardzadeh P, Pietzsch S, Schröder C, Eberhardt A, van Bömmel A, Escherich G, Hofmann W, Horstmann MA, Illig T, McCrary JM, Lentes J, Metzler M, Nejdl W, Schlegelberger B, Schrappe M, Zimmermann M, Miarka-Walczyk K, Patsorczak A, Cario G, Renard BY, Stanulla M, Bergmann AK
  EBioMedicine 2024, 104, 105171
  
• Segmentation-based cardiomegaly detection based on semi-supervised estimation of cardiothoracic ratio.
  Thiam P, Kloth C, Blaich D, Liebold A, Beer M, Kestler HA
  Sci Rep 2024, 14(1), 5695
  
• Engineering extracellular vesicles to transiently permeabilize the blood-brain barrier.
  Tomatis F, Rosa S, Simões S, Barão M, Jesus C, Novo J, Barth E, Marz M, Ferreira L
  J Nanobiotechnology 2024, 22(1), 747
  
• Comprehensive survey of conserved RNA secondary structures in full-genome alignment of Hepatitis C virus.
  Triebel S, Lamkiewicz K, Ontiveros N, Sweeney B, Stadler PF, Petrov AI, Niepmann M, Marz M
  Sci Rep 2024, 14(1), 15145
  
• Ribosomal protein L24 mediates mammalian microRNA processing in an evolutionarily conserved manner.
  Tzur Y, Dubnov S, Madrer N, Bar A, Nadorp B, Mishra N, Heppenstall P, Bennett ER, Greenberg DS, Winek* K, Soreq* H
  Cell Mol Life Sci 2024, 81(1), 55 * corresponding author, Selected as Paper of The Month ELSC Jerusalem January 2024
  
• Lysine tRNA fragments and miR-194-5p co-regulate hepatic steatosis via β-Klotho and perilipin 2.
  Tzur Y, Winek K, Madrer N, Dubnov S, Bennett ER, Greenberg DS, Hanin G, Gammal A, Tam J, Arkin IT, Paldor I, Soreq H
  Mol Metab 2024, 79, 101856
  
• Ten simple rules for implementing electronic lab notebooks (ELNs).
  Vandendorpe J, Adam B, Wilbrandt J, Lindstädt B, Förstner KU
  PLoS Comput Biol 2024, 20(6), e1012170
  
• Editorial for ADAC issue 2 of volume 18 (2024)
  Vichi M, Cerioli A, Kestler HA, Okada A, Weihs C
  ADV DATA ANAL CLASSI 2024, 18(2), 245–249
  
• Bidirectional Impact of miR-29a modulation on Memory Stability in the Adult Brain
  Viglione A, Giannuzzi C, Putignano E, Mazziotti R, Cellerino A, Pizzorusso T
  bioRxiv 2024, https://doi.org/10.1101/2024.11.
  
• Immune checkpoint expression on tumor-infiltrating lymphocytes (TIL) is dependent on HPV status in oropharyngeal carcinoma (OPSCC) - A single-cell RNA sequencing analysis.
  von Witzleben A, Grages A, Thomas J, Ezić J, Brunner C, Schuler PJ, Kraus JM, Kestler HA, Vahl JM, Doescher J, King EV, Ottensmeier CH, Hoffmann TK, Laban S
  Oral Oncol 2024, 159, 107107
  
• Maternal perceived stress and green spaces during pregnancy are associated with adult offspring gene (NR3C1 and IGF2/H19) methylation patterns in adulthood: A pilot study.
  Vos S, Van den Bergh BRH, Martens DS, Bijnens E, Shkedy Z, Kindermans H, Platzer M, Schwab M, Nawrot TS
  Psychoneuroendocrinology 2024, 167, 107088
  
• The Neurobeachin-like 2 protein (NBEAL2) controls the homeostatic level of the ribosomal protein RPS6 in mast cells.
  Wegner P, Drube J, Ziegler L, Strotmann B, Marquardt R, Küchler C, Groth M, Nieswandt B, Andreas N, Drube S
  Immunology 2024, 172(1), 61-76
  
• GatekeepR: an R shiny application for the identification of nodes with high dynamic impact in boolean networks.
  Weidner FM, Ikonomi N, Werle SD, Schwab JD, Kestler HA
  Bioinformatics 2024, 40(1), btae007
  
• SEPTIN10-mediated crosstalk between cytoskeletal networks controls mechanotransduction and oncogenic YAP/TAZ signaling.
  Weiler SME, Bissinger M, Rose F, von Bubnoff F, Lutz T, Ori A, Schirmacher P, Breuhahn K
  Cancer Lett 2024, 584, 216637
  
• Resident and recruited macrophages differentially contribute to cardiac healing after myocardial ischemia.
  Weinberger T, Denise M, Joppich M, Fischer M, Garcia Rodriguez C, Kumaraswami K, Wimmler V, Ablinger S, Räuber S, Fang J, Liu L, Liu WH, Winterhalter J, Lichti J, Thomas L, Esfandyari D, Percin G, Matin S, Hidalgo A, Waskow C, Engelhardt S, Todica A, Zimmer R, Pridans C, Gomez Perdiguero E, Schulz C
  Elife 2024, 12, RP89377
  
• Repopulated microglia after pharmacological depletion decrease dendritic spine density in adult mouse brain.
  Wickel J, Chung HY, Ceanga M, von Stackelberg N, Hahn N, Candemir Ö, Baade-Büttner C, Mein N, Tomasini P, Woldeyesus DM, Andreas N, Baumgarten P, Koch P, Groth M, Wang ZQ, Geis C
  Glia 2024, 72(8), 1484-500
  
• Ferritin heavy chain supports stability and function of the regulatory T cell lineage.
  Wu* Q, Carlos* AR, Braza* F, Bergman ML, Kitoko JZ, Bastos-Amador P, Cuadrado E, Martins R, Oliveira BS, Martins VC, Scicluna BP, Landry JJ, Jung FE, Ademolue TW, Peitzsch M, Almeida-Santos J, Thompson J, Cardoso S, Ventura P, Slot M, Rontogianni S, Ribeiro V, Domingues VDS, Cabral IA, Weis S, Groth M, Ameneiro C, Fidalgo M, Wang F, Demengeot J, Amsen D, Soares MP
  EMBO J 2024, 43(8), 1445-83
  
• Aggregates of nonmuscular myosin IIA in erythrocytes associate with GATA1- and GFI1B-related thrombocytopenia.
  Zaninetti C, Rivera J, Vater L, Ohlenforst S, Leinøe E, Böckelmann D, Freson K, Thiele T, Makhloufi H, Rath M, Eberl W, Wolff M, Freyer C, Wesche J, Zieger B, Felbor U, Heidel FH, Greinacher A
  J Thromb Haemost 2024, 22(4), 1179-86
  
• Immunofluorescence microscopy on the blood smear identifies patients with myeloproliferative neoplasms.
  Zaninetti C, Vater L, Kaderali L, Crodel CC, Schnöder TM, Fuhrmann J, Swensson L, Wesche J, Freyer C, Greinacher A, Heidel FH
  Leukemia 2024, 38(9), 2051-8
  
• Metagenomic Analyses of Water Samples of Two Urban Freshwaters in Berlin, Germany, Reveal New Highly Diverse Invertebrate Viruses.
  Zell R, Groth M, Selinka L, Selinka HC
  Microorganisms 2024, 12(11), 2361
  
• Diversity of Picorna-Like Viruses in the Teltow Canal, Berlin, Germany.
  Zell R, Groth M, Selinka L, Selinka HC
  Viruses 2024, 16(7), 1020
  

Publications 2023:

• Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.
  Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group, PCAWG Consortium
  Nat Genet 2023, 55(6), 1079
  
• Author Correction: The repertoire of mutational signatures in human cancer.
  Alexandrov LB, Kim J, Haradhvala NJ, Huang MN, Tian Ng AW, Wu Y, Boot A, Covington KR, Gordenin DA, Bergstrom EN, Islam SMA, Lopez-Bigas N, Klimczak LJ, McPherson JR, Morganella S, Sabarinathan R, Wheeler DA, Mustonen V, PCAWG Mutational Signatures Working Group, Getz G, Rozen SG, Stratton MR, PCAWG Consortium
  Nature 2023, 614(7948), E41
  
• Recurrent DNMT3B rearrangements are associated with unfavorable outcome in dicentric (9;20)-positive pediatric BCP-ALL.
  Antić Ž, van Bömmel A, Riege K, Lentes J, Schröder C, Alten J, Eckert C, Fuhrmann L, Steinemann D, Lenk L, Schewe DM, Zimmermann M, Schrappe M, Schlegelberger B, Cario G, Hoffmann S, Bergmann AK
  Leukemia 2023, 37(12), 2522-5
  
• Erratum: Long-Term Brain Organotypic Cultures of the Turquoise Killifish Nothobranchius furzeri.
  Bagnoli S, Brogi L, Fronte B, Bibbiani C, Tozzini ET, Cellerino A
  Cold Spring Harb Protoc 2023, 2023(8), pdb.err108392
  
• Localization and Characterization of Major Neurogenic Niches in the Brain of the Lesser-Spotted Dogfish Scyliorhinus canicula.
  Bagnoli S, Chiavacci E, Cellerino A, Terzibasi Tozzini E
  Int J Mol Sci 2023, 24(4), 3650
  
• Whole-Brain Clearing and Immunofluorescence in Nothobranchius furzeri.
  Bagnoli S, Terzibasi Tozzini E, Cellerino A
  Cold Spring Harb Protoc 2023, 2023(9), 698-704
  
• Immunofluorescence and Aggresome Staining of Nothobranchius furzeri Cryosections.
  Bagnoli S, Terzibasi Tozzini E, Cellerino A
  Cold Spring Harb Protoc 2023, 2023(9), 693-7
  
• EdU and Immunofluorescence Staining of Nothobranchius furzeri Organotypic Cultures.
  Bagnoli S, Terzibasi Tozzini E, Cellerino A
  Cold Spring Harb Protoc 2023, 2023(3), pdb.prot107790
  
• Vaccine Side Effects in Health Care Workers after Vaccination against SARS-CoV-2: Data from TüSeRe:exact Study.
  Bareiß A, Uzun G, Mikus M, Becker M, Althaus K, Schneiderhan-Marra N, Fürstberger A, Schwab JD, Kestler HA, Holderried M, Martus P, Schenke-Layland K, Bakchoul T
  Viruses 2023, 15(1), 65
  
• Evolution, mechanism and limits of dietary restriction induced health benefits and longevity.
  Becker F, Behrends MM, Rudolph KL
  Redox Biol 2023, 63, 102725
  
• Self-Assessment of Having COVID-19 With the Corona Check mHealth App.
  Beierle F, Allgaier J, Stupp C, Keil T, Schlee W, Schobel J, Vogel C, Haug F, Haug J, Holfelder M, Langguth B, Langguth J, Riens B, King R, Mulansky L, Schickler M, Stach M, Heuschmann P, Wildner M, Greger H, Reichert M, Kestler HA, Pryss R
  IEEE J BIOMED HEALTH 2023, 27(6), 2794
  
• Pomalidomide combinations are a safe and effective option after daratumumab failure.
  Brioli A, Gengenbach L, Mancuso K, Binder M, Ernst T, Heidel FH, Stauch T, Zamagni E, Hilgendorf I, Hochhaus A, Engelhardt M, von Lilienfeld-Toal M
  J Cancer Res Clin Oncol 2023, 149(9), 6569
  
• Female reproductive fluid attracts more and better sperm: implications for within-ejaculate cryptic female choice.
  Cattelan S, Devigili A, Santacà M, Gasparini C
  Biol Lett 2023, 19(6), 20230063
  
• Noninvasive Ejaculate Collection from the African Turquoise Killifish Nothobranchius furzeri.
  Cattelan S, Valenzano DR
  Cold Spring Harb Protoc 2023, 5
  
• Human NMDAR autoantibodies disrupt excitatory-inhibitory balance, leading to hippocampal network hypersynchrony.
  Ceanga M, Rahmati V, Haselmann H, Schmidl L, Hunter D, Brauer AK, Liebscher S, Kreye J, Prüss H, Groc L, Hallermann S, Dalmau J, Ori A, Heckmann M, Geis C
  Cell Rep 2023, 42(10), 113166
  
• UPF3A is dispensable for nonsense-mediated mRNA decay in mouse pluripotent and somatic cells.
  Chen C, Shen Y, Li L, Ren Y, Wang ZQ, Li T
  Life Sci Alliance 2023, 6(6), e202201589. doi: 10.26508/lsa.20
  
• Genetic separation of chronic myeloid leukemia stem cells from normal hematopoietic stem cells at single-cell resolution.
  Chen Y, Möbius S, Riege K, Hoffmann S, Hochhaus A, Ernst* T, Rudolph* KL
  Leukemia 2023, 37(7), 1561-6 * equal contribution
  
• Distribution of Brain-Derived Neurotrophic Factor in the Brain of the Small-Spotted Catshark Scyliorhinus canicula, and Evolution of Neurotrophins in Basal Vertebrates.
  Chiavacci E, Bagnoli S, Cellerino A, Terzibasi Tozzini E
  Int J Mol Sci 2023, 24(11), 9495
  
• Microglia mediate neurocognitive deficits by eliminating C1q-tagged synapses in sepsis-associated encephalopathy.
  Chung HY, Wickel J, Hahn N, Mein N, Schwarzbrunn M, Koch P, Ceanga M, Haselmann H, Baade-Büttner C, von Stackelberg N, Hempel N, Schmidl L, Groth M, Andreas N, Götze J, Coldewey SM, Bauer M, Mawrin C, Dargvainiene J, Leypoldt F, Steinke S, Wang ZQ, Hust M, Geis C
  Sci Adv 2023, 9(21), eabq7806
  
• Peripheral Ischemia Imprints Epigenetic Changes in Hematopoietic Stem Cells to Propagate Inflammation and Atherosclerosis.
  Coppin E, Zhang X, Ohayon L, Johny E, Dasari A, Zheng KH, Stiekema L, Cifuentes-Pagano E, Pagano PJ, Chaparala S, Stroes ES, Dutta P
  Arterioscler Thromb Vasc Biol 2023, 43(6), 889-906
  
• Cell-cell metabolite exchange creates a pro-survival metabolic environment that extends lifespan.
  Correia-Melo C, Kamrad S, Tengölics R, Messner CB, Trebulle P, Townsend S, Jayasree Varma S, Freiwald A, Heineike BM, Campbell K, Herrera-Dominguez L, Kaur Aulakh S, Szyrwiel L, Yu JSL, Zelezniak A, Demichev V, Mülleder M, Papp B, Alam MT, Ralser M
  Cell 2023, 186(1), 63
  
• Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.
  Cortés-Ciriano I, Lee JJK, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, PCAWG Structural Variation Working Group, Park PJ, PCAWG Consortium
  Nat Genet 2023, 55(6), 1076
  
• Turquoise killifish: A natural model of age-dependent brain degeneration.
  de Bakker DEM, Valenzano DR
  Ageing Res Rev 2023, 90, 102019
  
• Contribution of radixin and ezrin to the maintenance of hepatocytes' excretory function in health and disease.
  Dellbrügge F, Jesse LD, Medyukhina A, Liu N, Neugebauer S, Freißmuth M, Höppener S, Figge MT, Morrison H, Riecken LB, Press AT
  Heliyon 2023, 9(11), e21009
  
• Editorial: Guardians of protein homeostasis (proteostasis) in health, disease and aging.
  Dougan** DA, Truscott** KN, Kirstein** J
  Front Mol Biosci 2023, 10, 1350666 ** co-corresponding authors
  
• Quantitative Evaluation of COVID-19 Pneumonia CT Using AI Analysis-Feasibility and Differentiation from Other Common Pneumonia Forms.
  Ebong U, Büttner SM, Schmidt SA, Flack F, Korf P, Peters L, Grüner B, Stenger S, Stamminger T, Kestler H, Beer M, Kloth C
  Diagnostics (Basel) 2023, 13(12), 2129
  
• First-Line Venetoclax Combinations in Chronic Lymphocytic Leukemia.
  Eichhorst B, Niemann CU, Kater AP, Fürstenau M, von Tresckow J, Zhang C, Robrecht S, Gregor M, Juliusson G, Thornton P, Staber PB, Tadmor T, Lindström V, da Cunha-Bang C, Schneider C, Poulsen CB, Illmer T, Schöttker B, Nösslinger T, Janssens A, Christiansen I, Baumann M, Frederiksen H, van der Klift M, Jäger U, Leys MBL, Hoogendoorn M, Lotfi K, Hebart H, Gaska T, Koene H, Enggaard L, Goede J, Regelink JC, Widmer A, Simon F, De Silva N, Fink AM, Bahlo J, Fischer K, Wendtner CM, Kreuzer KA, Ritgen M, Brüggemann M, Tausch E, Levin MD, van Oers M, Geisler C, Stilgenbauer S, Hallek M, GCLLSG the HOVON and Nordic CLL Study Groups the SAKK the Israeli CLL Association and Cancer Trials Ireland
  N Engl J Med 2023, 388(19), 1739
  
• Cell fate determinant Llgl1 is required for propagation of acute myeloid leukemia.
  Eifert T, Hsu CJ, Becker AL, Graessle S, Horne A, Bemmann F, Zhang Q, Heuser M, Vasioukhin V, Scholl S, Hochhaus A, Siegerist F, Endlich N, Bullinger L, Lane SW, Haas S, Schnoeder TM, Heidel FH
  Leukemia 2023, 37(10), 2027-35
  
• Assembling highly repetitive Xanthomonas TALomes using Oxford Nanopore sequencing.
  Erkes A, Grove RP, Žarković M, Krautwurst S, Koebnik R, Morgan RD, Wilson GG, Hölzer M, Marz M, Boch J, Grau J
  BMC Genomics 2023, 24(1), 151
  
• p53 and MYC-regulated squalene epoxidase as Achilles heel in colorectal cancer.
  Fischer M
  Int J Biol Sci 2023, 19(15), 4831
  
• Physiological media advance cell culture experiments.
  Fischer M
  Trends Biochem Sci 2023, 48(2), 103-5
  
• The landscape of human p53-regulated long non-coding RNAs reveals critical host gene co-regulation.
  Fischer M, Riege K, Hoffmann S
  MOL ONCOL 2023, 17(7), 1263-79
  
• Human gene-engineered calreticulin mutant stem cells recapitulate MPN hallmarks and identify targetable vulnerabilities.
  Foßelteder J, Pabst G, Sconocchia T, Schlacher A, Auinger L, Kashofer K, Beham-Schmid C, Trajanoski S, Waskow C, Schöll W, Sill H, Zebisch A, Wölfler A, Thomas D, Reinisch A
  Leukemia 2023, 37(4), 843-53
  
• Impact of Hypermannosylation on the Structure and Functionality of the ER and the Golgi Complex.
  Franzka P, Schüler SC, Kentache T, Storm R, Bock A, Katona I, Weis J, Buder K, Kaether C, Hübner CA
  Biomedicines 2023, 11(1), 146.doi: 10.3390/biomedicines110
  
• Autism Spectrum Disorder: A Neuro-Immunometabolic Hypothesis of the Developmental Origins.
  Frasch MG, Yoon BJ, Helbing DL, Snir G, Antonelli MC, Bauer R
  Biology (Basel) 2023, 12(7), 914
  
• AMBAR - Interactive Alteration annotations for molecular tumor boards.
  Fürstberger A, Ikonomi N, Kestler AMR, Marienfeld R, Schwab JD, Kuhn P, Seufferlein T, Kestler HA
  Comput Methods Programs Biomed 2023, 240, 107697
  
• Federated electronic data capture (fEDC): Architecture and prototype.
  Ganzinger M, Blumenstock M, Fürstberger A, Greulich L, Kestler HA, Marschollek M, Niklas C, Schneider T, Spreckelsen C, Tute E, Varghese J, Dugas M
  J Biomed Inform 2023, 138, 104280
  
• Deletion of Cd44 Inhibits Metastasis Formation of Liver Cancer in Nf2 -Mutant Mice.
  Gerardo-Ramírez M, Giam V, Becker D, Groth M, Hartmann N, Morrison H, May-Simera HL, Radsak MP, Marquardt JU, Galle PR, Herrlich P, Straub BK, Hartmann M
  Cells 2023, 12(9), 1257
  
• Comparative analysis of thyroid hormone systems in rodents with subterranean lifestyle.
  Gerhardt P, Begall S, Frädrich C, Renko K, Hildebrandt TB, Holtze S, Heinrich A, Sahm A, Meci X, Köhrle J, Rijntjes E, Henning Y
  Sci Rep 2023, 13(1), 3122
  
• Author Correction: The evolutionary history of 2,658 cancers.
  Gerstung M, Jolly C, Leshchiner I, Dentro SC, Gonzalez S, Rosebrock D, Mitchell TJ, Rubanova Y, Anur P, Yu K, Tarabichi M, Deshwar A, Wintersinger J, Kleinheinz K, Vázquez-García I, Haase K, Jerman L, Sengupta S, Macintyre G, Malikic S, Donmez N, Livitz DG, Cmero M, Demeulemeester J, Schumacher S, Fan Y, Yao X, Lee J, Schlesner M, Boutros PC, Bowtell DD, Zhu H, Getz G, Imielinski M, Beroukhim R, Sahinalp SC, Ji Y, Peifer M, Markowetz F, Mustonen V, Yuan K, Wang W, Morris QD, PCAWG Evolution and Heterogeneity Working Group, Spellman PT, Wedge DC, Van Loo P, PCAWG Consortium
  Nature 2023, 614(7948), E42
  
• The Pgb1 locus controls glycogen aggregation in astrocytes of the aged hippocampus without impacting cognitive function
  Gómez-Pascual* A, Glikman* DM, Ng* HX, Tomkins JE, Lu L, Xu Y, Ashbrook DG, Kaczorowski C, Kempermann G, Killmar J, Ohlenschläger O, Aebersold R, Ingram DK, Williams EG, Williams** RW, Overall RW, Jucker M, de Bakker** DEM
  bioRxiv 2023, 10.1101/2023.11.22.567373 * equal contribution, ** co-corresponding authors
  
• Protecting RNA quality for spatial transcriptomics while improving immunofluorescent staining quality.
  Hahn N, Bens M, Kempfer M, Reißig C, Schmidl L, Geis C
  Front Neurosci 2023, 17, 1198154
  
• Towards an Architecture for Collecting a Multidimensional Glioblastoma Dataset.
  Hieber D, Prokop G, Karthan M, Holl F, Kestler HA, Grabow G, Märkl B, Pryss R, Liesche-Starnecker F, Schobel J
  In: IEEE 36th International Symposium on Computer-Based Medical Systems (CBMS), L’Aquila, Italy 2023 2023, 904-909, IEEE Publications, Los
  
• Molecular-defined clonal evolution in patients with classical myeloproliferative neoplasms.
  Hinze A, Rinke J, Crodel CC, Möbius S, Schäfer V, Heidel FH, Hochhaus A, Ernst T
  Br J Haematol 2023, 202(2), 308-17
  
• Liquid biopsy: an examination of platelet RNA obtained from head and neck squamous cell carcinoma patients for predictive molecular tumor markers.
  Huber* LT, Kraus* JM, Ezić* J, Wanli A, Groth M, Laban S, Hoffmann TK, Wollenberg B, Kestler** HA, Brunner** C
  Explor Target Antitumor Ther 2023, 4(3), 422–446 * equal contribution, ** co-corresponding authors
  
• The International Virus Bioinformatics Meeting 2023.
  Hufsky F, Abecasis AB, Babaian A, Beck S, Brierley L, Dellicour S, Eggeling C, Elena SF, Gieraths U, Ha AD, Harvey W, Jones TC, Lamkiewicz K, Lovate GL, Lücking D, Machyna M, Nishimura L, Nocke MK, Renard BY, Sakaguchi S, Sakellaridi L, Spangenberg J, Tarradas-Alemany M, Triebel S, Vakulenko Y, Wijesekara RY, González-Candelas F, Krautwurst S, Pérez-Cataluña A, Randazzo W, Sánchez G, Marz M
  Viruses 2023, 15(10)
  
• Author Correction: Pan-cancer analysis of whole genomes.
  ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium
  Nature 2023, 614(7948), E39
  
• Membrane shapers from two distinct superfamilies cooperate in the development of neuronal morphology.
  Izadi M, Wolf D, Seemann E, Ori A, Schwintzer L, Steiniger F, Kessels MM, Qualmann B
  J Cell Biol 2023, 222(8), e202211032
  
• Sequential disruption of SPLASH-identified vRNA-vRNA interactions challenges their role in influenza A virus genome packaging.
  Jakob C, Lovate GL, Desirò D, Gießler L, Smyth RP, Marquet R, Lamkiewicz K, Marz M, Schwemmle M, Bolte H
  Nucleic Acids Res 2023, 51(12), 6479
  
• Metabolic heterogeneity and cross-feeding within isogenic yeast populations captured by DILAC.
  Kamrad S, Correia-Melo C, Szyrwiel L, Aulakh SK, Bähler J, Demichev V, Mülleder M, Ralser M
  NAT MICROBIOL 2023, 8(3), 441
  
• Ageing-associated small RNA cargo of extracellular vesicles.
  Kern F, Kuhn T, Ludwig N, Simon M, Gröger L, Fabis N, Aparicio-Puerta E, Salhab A, Fehlmann T, Hahn O, Engel A, Wagner V, Koch M, Winek K, Soreq H, Nazarenko I, Fuhrmann G, Wyss-Coray T, Meese E, Keller V, Laschke MW, Keller A
  RNA Biol 2023, 20(1), 482-94
  
• Berichte des Instituts für Medizinische Systembiologie 2023-01, Ulm University, Germany, 2023., Statistical Computing 2023 - Abstracts der 53. Arbeitstagung.
  Kestler HA, Kraus JM (eds)
  Book series: Computational Biology Series 2023, Universität Ulm, Ulm, Germany
  
• Differential Transcriptional Responses of Human Granulocytes to Fungal Infection with Candida albicans and Aspergillus fumigatus.
  Klassert TE, Hölzer M, Zubiria-Barrera C, Bethge J, Klaile E, Müller MM, Marz M, Slevogt H
  J Fungi (Basel) 2023, 9(10)
  
• Crafting figures to describe cellular processes.
  Kmiecik** SW, Shi** Q, Chen** YG, Moormann** J, Hildebrandt** TM, Schade** A, Fischer** M, Kim** KQ
  Trends Biochem Sci 2023, 48(6), 491-4 ** co-corresponding authors
  
• Sperm length evolution in relation to body mass is shaped by multiple trade-offs in tetrapods
  Koçillari* L, Cattelan*/* S, Rasotto MB, Seno F, Maritan A, Pilastro A
  bioRxiv 2023, 10.1101/2023.09.12.557314 * equal contribution, * corresponding author
  
• Efficacy and safety of ruxolitinib in patients with newly-diagnosed polycythemia vera: futility analysis of the RuxoBEAT clinical trial of the GSG-MPN study group.
  Koschmieder S, Isfort S, Wolf D, Heidel FH, Hochhaus A, Schafhausen P, Griesshammer M, Wolleschak D, Platzbecker U, Döhner K, Jost PJ, Parmentier S, Schaich M, von Bubnoff N, Stegelmann F, Maurer A, Crysandt M, Gezer D, Kortmann M, Franklin J, Frank J, Hellmich M, Brümmendorf TH, German Study Group for Myeloproliferative Neoplasms (GSG-MPN)
  Ann Hematol 2023, 102(2), 349
  
• DNA methylation controls hematopoietic stem cell aging.
  Krepelova A, Neri F
  Nat Aging 2023, 3(11), 1320-2
  
• Streptomyces polyketides mediate bacteria-fungi interactions across soil environments.
  Krespach MKC, Stroe MC, Netzker T, Rosin M, Zehner LM, Komor AJ, Beilmann JM, Krüger T, Scherlach K, Kniemeyer O, Schroeckh V, Hertweck C, Brakhage AA
  Nat Microbiol 2023, 8(7), 1348-61
  
• Rapid Genotyping of Nothobranchius furzeri Embryos, Larvae, and Adult Fish via High-Resolution Melt Analysis (HRMA).
  Krug J, Richter A, Englert C
  Cold Spring Harb Protoc 2023, 2023(8), 107744
  
• Genome Structure, Life Cycle, and Taxonomy of Coronaviruses and the Evolution of SARS-CoV-2.
  Lamkiewicz K, Esquivel Gomez LR, Kühnert D, Marz M
  Curr Top Microbiol Immunol 2023, 439, 305
  
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  ADV DATA ANAL CLASSI 2023, 17(2), 287–290
  
• Editorial for ADAC issue 4 of volume 17 (2023)
  Vichi M, Cerioli A, Kestler HA, Okada A, Weihs C
  ADV DATA ANAL CLASSI 2023, 17(4), 823–827
  
• Editorial for ADAC issue 1 of volume 17 (2023)
  Vichi M, Cerioli A, Kestler HA, Okada A, Weihs C
  ADV DATA ANAL CLASSI 2023, 17(1), 1–4
  
• Editorial for ADAC issue 3 of volume 17 (2023)
  Vichi M, Cerioli A, Kestler HA, Okada A, Weihs C
  ADV DATA ANAL CLASSI 2023, 17(3), 545–548
  
• Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
  Vromman M, Anckaert J, Bortoluzzi S, Buratin A, Chen CY, Chu Q, Chuang TJ, Dehghannasiri R, Dieterich C, Dong X, Flicek P, Gaffo E, Gu W, He C, Hoffmann S, Izuogu O, Jackson MS, Jakobi T, Lai EC, Nuytens J, Salzman J, Santibanez-Koref M, Stadler P, Thas O, Vanden Eynde E, Verniers K, Wen G, Westholm J, Yang L, Ye CY, Yigit N, Yuan GH, Zhang J, Zhao F, Vandesompele J, Volders PJ
  Nat Methods 2023, 20(8), 1159-69
  
• Signalling by senescent melanocytes hyperactivates hair growth.
  Wang X, Ramos R, Phan AQ, Yamaga K, Flesher JL, Jiang S, Oh JW, Jin S, Jahid S, Kuan CH, Nguyen TK, Liang HY, Shettigar NU, Hou R, Tran KH, Nguyen A, Vu KN, Phung JL, Ingal JP, Levitt KM, Cao X, Liu Y, Deng Z, Taguchi N, Scarfone VM, Wang G, Paolilli KN, Wang X, Guerrero-Juarez CF, Davis RT, Greenberg EN, Ruiz-Vega R, Vasudeva P, Murad R, Widyastuti LHP, Lee HL, McElwee KJ, Gadeau AP, Lawson DA, Andersen B, Mortazavi A, Yu Z, Nie Q, Kunisada T, Karin M, Tuckermann J, Esko JD, Ganesan AK, Li J, Plikus MV
  Nature 2023, 618(7966), 808-17
  
• A protocol for the use of cloud-based quantum computers for logical network analysis of biological systems.
  Weidner FM, Rossini M, Ankerhold J, Kestler HA
  STAR Protoc 2023, 4(3), 102438
  
• Leveraging quantum computing for dynamic analyses of logical networks in systems biology.
  Weidner FM, Schwab JD, Wölk S, Rupprecht F, Ikonomi N, Werle SD, Hoffmann S, Kühl M, Kestler HA
  PATTERNS 2023, 4(3), 100705
  
• A systems biology approach to define mechanisms, phenotypes, and drivers in PanNETs with a personalized perspective.
  Werle SD, Ikonomi N, Lausser L, Kestler AMTU, Weidner FM, Schwab JD, Maier J, Buchholz M, Gress TM, Kestler AMR, Kestler HA
  NPJ Syst Biol Appl 2023, 9(1), 22
  
• Light and prey influence the abundances of two rhodopsins in the dinoflagellate Oxyrrhis marina.
  Westermann M, Hoischen C, Wöhlbrand L, Rabus R, Rhiel E
  Protoplasma 2023, 260(2), 529-44
  
• Transcriptomes of aging brain, heart, muscle, and spleen from female and male African turquoise killifish.
  Xu A, Teefy BB, Lu RJ, Nozownik S, Tyers AM, Valenzano DR, Benayoun BA
  Sci Data 2023, 10(1), 695 published during change of institution
  
• Author Correction: Butler enables rapid cloud-based analysis of thousands of human genomes.
  Yakneen S, Waszak SM, PCAWG Technical Working Group, Gertz M, Korbel JO, PCAWG Consortium
  Nat Biotechnol 2023, 41(4), 577
  
• High-throughput morphometric and transcriptomic profiling uncovers composition of naïve and sensory-deprived cortical cholinergic VIP/CHAT neurons.
  Yayon N, Amsalem O, Zorbaz T, Yakov O, Dubnov S, Winek K, Dudai A, Adam G, Schmidtner AK, Tessier-Lavigne M, Renier N, Habib N, Segev I, London M, Soreq H
  EMBO J 2023, 42(1), e110565
  
• Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers.
  Yuan Y, Ju YS, Kim Y, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim HL, Nakagawa H, Park K, Campbell PJ, Liang H, PCAWG Consortium
  Nat Genet 2023, 55(6), 1078
  
• Author Correction: The landscape of viral associations in human cancers.
  Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H, PCAWG Pathogens, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Consortium
  Nat Genet 2023, 55(6), 1077
  
• Exploring the Diversity of Plant-Associated Viruses and Related Viruses in Riverine Freshwater Samples Collected in Berlin, Germany.
  Zell R, Groth M, Selinka L, Selinka HC
  Pathogens 2023, 12(12), 1458
  
• Hepeliviruses in two waterbodies in Berlin, Germany.
  Zell R, Groth M, Selinka L, Selinka HC
  Arch Virol 2023, 168(1), 9
  
• Epidermal Growth Factor Receptor in Hepatic Endothelial Cells Suppresses MCP-1-Dependent Monocyte Recruitment in Diabetes.
  Zhang X, Ohayon-Steckel L, Coppin E, Johny E, Dasari A, Florentin J, Vasamsetti S, Dutta P
  J Immunol 2023, 210(9), 1363-71
  
• Ribosomal Dysfunction Is a Common Pathomechanism in Different Forms of Trichothiodystrophy.
  Zhu G, Khalid F, Zhang D, Cao Z, Maity P, Kestler HA, Orioli D, Scharffetter-Kochanek K, Iben S
  Cells 2023, 12(14), 1877
  
• Antiseptic efficacy of two mouth rinses in the oral cavity to identify a suitable rinsing solution in radiation- or chemotherapy induced mucositis.
  Zwicker P, Freitag M, Heidel FH, Kocher T, Kramer A
  BMC Oral Health 2023, 23(1), 176
  

Publications 2022:

• Inhibition of Cdk5 increases osteoblast differentiation and bone mass and improves fracture healing.
  Ahmad M, Krüger BT, Kroll T, Vettorazzi S, Dorn AK, Mengele F, Lee S, Nandi S, Yilmaz D, Stolz M, Tangudu NK, Vázquez DC, Pachmayr J, Cirstea IC, Spasic MV, Ploubidou A, Ignatius A, Tuckermann J
  Bone Res 2022, 10(1), 33
  
• Membrane lipids and maximum lifespan in clownfish.
  Almaida-Pagan PF, Lucas-Sanchez A, Martinez-Nicolas A, Terzibasi E, de Lama MAR, Cellerino A, Mendiola P, de Costa J
  Fish Physiol Biochem 2022, 48(1), 53-65
  
• Identification of a HTT-specific binding motif in DNAJB1 essential for suppression and disaggregation of HTT.
  Ayala Mariscal SM, Pigazzini ML, Richter Y, Özel M, Grothaus IL, Protze J, Ziege K, Kulke M, ElBediwi M, Vermaas JV, Colombi Ciacchi L, Köppen S, Liu F, Kirstein J
  Nat Commun 2022, 13(1), 4692
  
• Long-Term Brain Organotypic Cultures of the Turquoise Killifish Nothobranchius furzeri
  Bagnoli S, Brogi L, Fronte B, Bibbiani C, Terzibasi Tozzini E, Cellerino A
  Cold Spring Harb Protoc 2022, 2022(12), 624-9
  
• Quantification of noradrenergic-, dopaminergic-, and tectal-neurons during aging in the short-lived killifish Nothobranchius furzeri.
  Bagnoli S, Fronte B, Bibbiani C, Terzibasi Tozzini E, Cellerino A
  Aging Cell 2022, 21(9), e13689
  
• Breakthrough infections in MPN-COVID vaccinated patients.
  Barbui T, Carobbio A, Ghirardi A, Iurlo A, De Stefano V, Sobas MA, Rumi E, Elli EM, Lunghi F, Gasior Kabat M, Cuevas B, Guglielmelli P, Bonifacio M, Marchetti M, Alvarez-Larran A, Fox L, Bellini M, Daffini R, Benevolo G, Carreno-Tarragona G, Patriarca A, Al-Ali HK, Andrade-Campos MMM, Palandri F, Harrison C, Foncillas MA, Osorio S, Koschmieder S, Magro Mazo E, Kiladjian JJ, Bolaños Calderón E, Heidel FH, Quiroz Cervantes K, Griesshammer M, Garcia-Gutierrez V, Sanchez AM, Hernandez-Boluda JC, Lopez Abadia E, Carli G, Sagues Serrano M, Kusec R, Xicoy Cirici B, Guenova M, Navas Elorza B, Angona A, Cichocka E, Kulikowska de Nałęcz A, Cattaneo D, Bucelli C, Betti S, Borsani O, Cavalca F, Carbonell S, Curto-Garcia N, Benajiba L, Rambaldi A, Vannucchi AM
  Blood Cancer J 2022, 12(11), 154
  
• A Theoretical Approach to Ordinal Classification: Feature Space-Based Definition and Classifier-Independent Detection of Ordinal Class Structures
  Bellmann P, Lausser L, Kestler HA, Schwenker F
  APPL SCI-BASEL 2022, 12(4), 1815;
  
• Machine Learning-based Pain Intensity Estimation: Where Pattern Recognition meets Chaos Theory–An Example based on the BioVid Heat Pain Database.
  Bellmann P, Thiam P, Kestler HA, Schwenker F
  IEEE ACCESS 2022, 10, 102770-7
  
• Extensive age-dependent loss of antibody diversity in naturally short-lived turquoise killifish.
  Bradshaw WJ, Poeschla M, Placzek A, Kean S, Valenzano DR
  Elife 2022, 11, e65117 published during change of institution
  
• Impaired formation of neutrophil extracellular traps (NETs) in patients with myelodysplastic syndrome.
  Brings C, Fröbel J, Cadeddu RP, Germing U, Haas R, Gattermann N
  BLOOD ADV 2022, 6(1), 129-37
  
• Disruption of amphetamine sensitization by alteration of dendritic thin spines in the nucleus accumbens core.
  Cai WT, Kim WY, Kwak MJ, Rim H, Lee SE, Riecken LB, Morrison H, Kim JH
  J Neurochem 2022, 161(3), 266-80
  
• A Primeval Mechanism of Tolerance to Desiccation Based on Glycolic Acid Saves Neurons in Mammals from Ischemia by Reducing Intracellular Calcium-Mediated Excitotoxicity.
  Chovsepian A, Berchtold D, Winek K, Mamrak U, Ramírez Álvarez I, Dening Y, Golubczyk D, Weitbrecht L, Dames C, Aillery M, Fernandez-Sanz C, Gajewski Z, Dieterich M, Janowski M, Falkai P, Walczak P, Plesnila N, Meisel A, Pan-Montojo F
  Adv Sci (Weinh) 2022, 9(4), e2103265
  
• Novel biochemical, structural, and systems insights into inflammatory signaling revealed by contextual interaction proteomics.
  Ciuffa R, Uliana F, Mannion J, Mehnert M, Tenev T, Marulli C, Satanowski A, Keller LML, Rodilla Ramírez PN, Ori A, Gstaiger M, Meier P, Aebersold R
  Proc Natl Acad Sci U S A 2022, 119(40), e2117175119
  
• Partial Reduction in BRCA1 Gene Dose Modulates DNA Replication Stress Level and Thereby Contributes to Sensitivity or Resistance.
  Classen S, Rahlf E, Jungwirth J, Albers N, Hebestreit LP, Zielinski A, Poole L, Groth M, Koch P, Liehr T, Kankel S, Cordes N, Petersen C, Rothkamm K, Pospiech** H, Borgmann** K
  Int J Mol Sci 2022, 23(21), 13363 ** co-corresponding authors
  
• p53-mediated AKT and mTOR inhibition requires RFX7 and DDIT4 and depends on nutrient abundance.
  Coronel* L, Häckes* D, Schwab* K, Riege K, Hoffmann** S, Fischer** M
  Oncogene 2022, 41(7), 1063-9 * equal contribution, ** co-corresponding authors
  
• Cytoreductive treatment in real life: a chart review analysis on 1440 patients with polycythemia vera.
  Crodel CC, Jentsch-Ullrich K, Reiser M, Jacobasch L, Sauer A, Tesch H, Ulshöfer T, Wunschel R, Palandri F, Heidel FH
  J Cancer Res Clin Oncol 2022, 148(10), 2693-705
  
• A proteomic survival predictor for COVID-19 patients in intensive care.
  Demichev V, Tober-Lau P, Nazarenko T, Lemke O, Kaur Aulakh S, Whitwell HJ, Röhl A, Freiwald A, Mittermaier M, Szyrwiel L, Ludwig D, Correia-Melo C, Lippert LJ, Helbig ET, Stubbemann P, Olk N, Thibeault C, Grüning NM, Blyuss O, Vernardis S, White M, Messner CB, Joannidis M, Sonnweber T, Klein SJ, Pizzini A, Wohlfarter Y, Sahanic S, Hilbe R, Schaefer B, Wagner S, Machleidt F, Garcia C, Ruwwe-Glösenkamp C, Lingscheid T, Bosquillon de Jarcy L, Stegemann MS, Pfeiffer M, Jürgens L, Denker S, Zickler D, Spies C, Edel A, Müller NB, Enghard P, Zelezniak A, Bellmann-Weiler R, Weiss G, Campbell A, Hayward C, Porteous DJ, Marioni RE, Uhrig A, Zoller H, Löffler-Ragg J, Keller MA, Tancevski I, Timms JF, Zaikin A, Hippenstiel S, Ramharter M, Müller-Redetzky H, Witzenrath M, Suttorp N, Lilley K, Mülleder M, Sander LE, PA-COVID-19 Study group, Kurth F, Ralser M
  PLOS Digit Health 2022, 1(1), e0000007
  
• Planning preclinical confirmatory multicenter trials to strengthen translation from basic to clinical research – a multi-stakeholder workshop report
  Drude NI, Martinez-Gamboa L, Danziger M, Collazo A, Kniffert S, Wiebach J, Nilsonne G, Konietschke F, Piper SK, Pawel S, Micheloud C, Held L, Frommlet F, Segelcke D, Pogatzki-Zahn EM, Voelkl B, Friede T, Brunner E, Dempfle A, Haller B, Jung MJ, Riecken LB, Kuhn HG, Tenbusch M, Serna Higuita LM, Remarque EJ, Grüninger-Egli SL, Manske K, Kobold S, Rivalan M, Wedekind L, Wilcke JC, Boulesteix AL, Meinhardt MW, Spanagel R, Hettmer S, von Lüttichau I, Regina C, Dirnagl U, Toelch U
  Translational Medicine Communications 2022, 7(24), doi 10.1186/s41231-022-00130-8
  
• Preface to Current Topics in Cellular Aging
  Englert C
  In: Current Topics in Cellular Aging, Selected articles published by MDPI, Cells 2022, MDPI - Multidisciplinary Digital
  
• Career pathways, part 8.
  Ermolaeva M, Boyman L
  Nat Metab 2022, 4(4), 407-9
  
• Histone demethylase KDM4C is a functional dependency in JAK2-mutated neoplasms.
  Ernst P, Schnöder TM, Huber N, Perner F, Jayavelu AK, Eifert T, Hsu CJ, Tubío-Santamaría N, Crodel CC, Ungelenk M, Hübner CA, Clement JH, Hochhaus A, Heidel FH
  Leukemia 2022, 36(7), 1843-9
  
• A deep neural network provides an ultraprecise multi-tissue transcriptomic clock for the short-lived fish Nothobranchius furzeri and identifies predicitive genes translatable to human aging
  Ferrari E, Reichwald K, Koch P, Groth M, Baumgart M, Cellerino A
  bioRxiv 2022, doi.org/10.1101/2022.11.26.51761
  
• Dogs as carriers of virulent and resistant genotypes of Clostridioides difficile.
  Finsterwalder SK, Loncaric I, Cabal A, Szostak MP, Barf LM, Marz M, Allerberger F, Burgener IA, Tichy A, Feßler AT, Schwarz S, Monecke S, Ehricht R, Ruppitsch W, Spergser J, Künzel F
  ZOONOSES PUBLIC HLTH 2022, 69(6), 673-81
  
• Synthesizing genome regulation data with vote-counting.
  Fischer M, Hoffmann S
  Trends Genet 2022, 38(12), 1208-16
  
• Coordinating gene expression during the cell cycle.
  Fischer M, Schade AE, Branigan TB, Müller GA, DeCaprio JA
  Trends Biochem Sci 2022, 47(12), 1009-22
  
• Is there a role for statistics in artificial intelligence?
  Friedrich S, Antes G, Behr S, Binder H, Brannath W, Dumpert F, Ickstadt K, Kestler HA, Lederer J, Leitgöb H, Pauly M, Steland A, Wilhelm A, Friede  T
  ADV DATA ANAL CLASSI 2022, 10.1007/s11634-021-00455-6
  
• Comparative study of ten thogotovirus isolates and their distinct in vivo characteristics.
  Fuchs J, Lamkiewicz K, Kolesnikova L, Hölzer M, Marz M, Kochs G
  J Virol 2022, 96(5), e0155621
  
• Prediction of Antibiotic Susceptibility Profiles of Vibrio cholerae Isolates From Whole Genome Illumina and Nanopore Sequencing Data: CholerAegon.
  Fuesslin* V, Krautwurst* S, Srivastava A, Winter D, Liedigk B, Thye T, Herrera-León S, Wohl S, May J, Fobil JN, Eibach D, Marz** M, Schuldt** K
  Front Microbiol 2022, 13, 909692 * equal contribution, ** co-senior authors
  
• Osteocytes Serve as a Reservoir for Intracellular Persisting Staphylococcus aureus Due to the Lack of Defense Mechanisms.
  Garcia-Moreno M, Jordan PM, Günther K, Dau T, Fritzsch C, Vermes M, Schoppa A, Ignatius A, Wildemann B, Werz O, Löffler B, Tuchscherr L
  Front Microbiol 2022, 13, 937466
  
• CD44 Contributes to the Regulation of MDR1 Protein and Doxorubicin Chemoresistance in Osteosarcoma.
  Gerardo-Ramírez M, Keggenhoff FL, Giam V, Becker D, Groth M, Hartmann N, Straub BK, Morrison H, Galle PR, Marquardt JU, Herrlich P, Hartmann M
  Int J Mol Sci 2022, 23(15), 8616
  
• Recurrent Upper Gastrointestinal Bleeding from Isolated Gastric Varices as Primary Symptom of Myelofibrosis: A Case Report on Combining Interventional and Pharmacologic Treatment Options.
  Giszas B, Weber M, Heidel FH, Reuken PA
  Dig Dis 2022, 40(4), 530-4
  
• Immediate predation risk alters the relationship between potential and realised selection on male traits in the Trinidad guppy Poecilia reticulata.
  Glavaschi A, Cattelan S, Devigili A, Pilastro A
  Proc Biol Sci 2022, 289(1982), 20220641
  
• Comparative transcriptomics identifies candidate genes involved in the evolutionary transition from dehiscent to indehiscent fruits in Lepidium (Brassicaceae).
  Gramzow L, Klupsch K, Fernández-Pozo N, Hölzer M, Marz M, Rensing SA, Theißen G
  BMC Plant Biol 2022, 22(1), 340
  
• Tight association of autophagy and cell cycle in leukemia cells.
  Gschwind* A, Marx* C, Just MD, Severin P, Behring H, Marx-Blümel L, Becker S, Rothenburger L, Förster M, Beck JF, Sonnemann J
  Cell Mol Biol Lett 2022, 27(1), 32 * equal contribution
  
• Interaction Empowerment in Mobile Health: Concepts, Challenges, and Perspectives.
  Hamberger M, Ikonomi N, Schwab JD, Werle SD, Fürstberger A, Kestler AM, Holderried M, Kaisers UX, Steger F, Kestler HA
  JMIR MHEALTH UHEALTH 2022, 10(4), e32696
  
• A Phase Ib Dose-finding Study of Panobinostat and Ruxolitinib in Myelofibrosis.
  Harrison C, Heidel FH, Vannucchi AM, Kiladjian JJ, Hayat A, Passamonti F, Conneally E, Kindler T, Martino B, Lipka DB, Stefanelli T, Roussou P, Germano D, Ewan J, Ribrag V
  Hemasphere 2022, 6(8), e757
  
• Organelle dysfunction and its contribution to metabolic impairments in aging and age-related diseases
  Heiby JC, Ori A
  Current Opinion in Systems Biology 2022, 30, 10041
  
• Integrated genomic surveillance enables tracing of person-to-person SARS-CoV-2 transmission chains during community transmission and reveals extensive onward transmission of travel-imported infections, Germany, June to July 2021.
  Houwaart T, Belhaj S, Tawalbeh E, Nagels D, Fröhlich Y, Finzer P, Ciruela P, Sabrià A, Herrero M, Andrés C, Antón A, Benmoumene A, Asskali D, Haidar H, von Dahlen J, Nicolai J, Stiller M, Blum J, Lange C, Adelmann C, Schroer B, Osmers U, Grice C, Kirfel PP, Jomaa H, Strelow D, Hülse L, Pigulla M, Kreuzer P, Tyshaieva A, Weber J, Wienemann T, Kohns Vasconcelos M, Hoffmann K, Lübke N, Hauka S, Andree M, Scholz CJ, Jazmati N, Göbels K, Zotz R, Pfeffer K, Timm J, Ehlkes L, Walker A, Dilthey AT, German COVID-19 OMICS Initiative (DeCOI), German COVID-19 OMICs Initiative (DeCOI)
  Euro Surveill 2022, 27(43), 2101089
  
• Women in the European Virus Bioinformatics Center.
  Hufsky F, Abecasis A, Agudelo-Romero P, Bletsa M, Brown K, Claus C, Deinhardt-Emmer S, Deng L, Friedel CC, Gismondi MI, Kostaki EG, Kühnert D, Kulkarni-Kale U, Metzner KJ, Meyer IM, Miozzi L, Nishimura L, Paraskevopoulou S, Pérez-Cataluña A, Rahlff J, Thomson E, Tumescheit C, van der Hoek L, Van Espen L, Vandamme AM, Zaheri M, Zuckerman N, Marz M
  Viruses 2022, 14(7)
  
• The International Virus Bioinformatics Meeting 2022.
  Hufsky F, Beslic D, Boeckaerts D, Duchene S, González-Tortuero E, Gruber AJ, Guo J, Jansen D, Juma J, Kongkitimanon K, Luque A, Ritsch M, Lencioni Lovate G, Nishimura L, Pas C, Domingo E, Hodcroft E, Lemey P, Sullivan MB, Weber F, González-Candelas F, Krautwurst S, Pérez-Cataluña A, Randazzo W, Sánchez G, Marz M
  Viruses 2022, 14(5)
  
• Gib mir den Virus und ich sag dir den Wirt
  Hufsky F, Marz M
  BIOspektrum 2022, 28, 225–226
  
• LINC00892 Is an lncRNA Induced by T Cell Activation and Expressed by Follicular Lymphoma-Resident T Helper Cells.
  Iaccarino I, Mourtada F, Reinke S, Patil P, Doose G, Monaco G, Hoffmann S, Siebert R, Klapper W
  Noncoding RNA 2022, 8(3), 40
  
• Discrete Logic Modeling of Cell Signaling Pathways
  Ikonomi N, Werle SD, Schwab JD, Kestler HA
  In: TGF-Beta Signaling, Methods in Molecular Biology (edited by Zi Z, Liu X) 2022, 2488(chap. 12), 159-181, Humana Press Inc., Toto
  
• Discrete Logic Modeling of Cell Signaling Pathways
  Ikonomi N, Werle SD, Schwab JD, Kestler HA
  In: TGF-Beta Signaling (edited by Zi Z, Liu X), Methods in Molecular Biology 2022, 2488, 159-181, Humana Press Inc., Toto
  
• Inter-tissue convergence of gene expression during ageing suggests age-related loss of tissue and cellular identity.
  Izgi H, Han D, Isildak U, Huang S, Kocabiyik E, Khaitovich** P, Somel** M, Dönertaş** HM
  Elife 2022, 11, e68048 ** co-corresponding authors
  
• Enhancing mHealth data collection applications with sensing capabilities.
  Karthan M, Martin R, Holl F, Swoboda W, Kestler HA, Pryss R, Schobel J
  Front Public Health 2022, 10, 926234
  
• Collecting Data from Senior Citizens Using Serious Games
  Karthan M, Romahn P, Pryss R, Kestler H, Schobel J
  In: Advances in Informatics, Management and Technology in Healthcare (edited by John M, Parisis G, Emmanouil Z, Arie H, Mowafa SH, Marianna D, Joseph L, Martha C), Studies in Health Technology and Informatics 2022, 295, 234 - 237, IOS Press Ebooks, Ams
  
• Lessons from a ten-year-long journey: building a student-driven computational biology society across Turkey.
  Kaya Y, Karakulak T, Can Saylan C, Gür ER, Tatlıdil E, Güleşen S, Betül Dinçaslan F, Dönertaş HM
  F1000Res 2022, 11
  
• Chaperoning the nuclear envelope.
  Kirstein J
  Nat Cell Biol 2022, 24(11), 1563
  
• Protein lifetimes in aged brains reveal a proteostatic adaptation linking physiological aging to neurodegeneration.
  Kluever V, Russo B, Mandad S, Kumar NH, Alevra M, Ori A, Rizzoli SO, Urlaub H, Schneider A, Fornasiero EF
  Sci Adv 2022, 8(20), eabn4437
  
• Functional Genomic Screening in Human Pluripotent Stem Cells Reveals New Roadblocks in Early Pancreatic Endoderm Formation.
  Krüger J, Breunig M, Pasquini LP, Morawe M, Groß A, Arnold F, Russell R, Seufferlein T, Azoitei N, Kestler HA, Julier C, Heller S, Hohwieler M, Kleger A
  Cells 2022, 11(3), 582
  
• RelB contributes to the survival, migration and lymphomagenesis of B cells with constitutively active CD40 signaling.
  Kuhn LB, Valentin S, Stojanovic K, Strobl DC, Babushku T, Wang Y, Rambold U, Scheffler L, Grath S, John-Robbert D, Blum H, Feuchtinger A, Blutke A, Weih F, Kitamura D, Rad R, Strobl LJ, Zimber-Strobl U
  Front Immunol 2022, 13, 913275
  
• CLN3 is required for the clearance of glycerophosphodiesters from lysosomes.
  Laqtom NN, Dong W, Medoh UN, Cangelosi AL, Dharamdasani V, Chan SH, Kunchok T, Lewis CA, Heinze I, Tang R, Grimm C, Dang Do AN, Porter FD, Ori A, Sabatini DM, Abu-Remaileh M
  Nature 2022, 609(7929), 1005-11
  
• High-yield production of coenzyme F420 in Escherichia coli by fluorescence-based screening of multi-dimensional gene expression space.
  Last D, Hasan M, Rothenburger L, Braga D, Lackner G
  Metab Eng 2022, 73, 158-67
  
• Efficient cross-validation traversals in feature subset selection.
  Lausser L, Szekely R, Schmid F, Maucher M, Kestler HA
  Sci Rep 2022, 12(1), 21485
  
• CHD5 inhibits metastasis of neuroblastoma.
  Laut AK, Dorneburg C, Fürstberger A, Barth TFE, Kestler HA, Debatin KM, Beltinger C
  Oncogene 2022, 41(5), 622-33
  
• Acetylation-Specific Interference by Anti-Histone H3K9ac Intrabody Results in Precise Modulation of Gene Expression.
  Lisi S, Trovato M, Vitaloni O, Fantini M, Chirichella M, Tognini P, Cornuti S, Costa M, Groth M, Cattaneo A
  Int J Mol Sci 2022, 23(16), 8892
  
• New lessons on TDP-43 from old N. furzeri killifish.
  Louka A, Bagnoli S, Rupert J, Esapa B, Tartaglia GG, Cellerino A, Pastore A, Terzibasi Tozzini E
  Aging Cell 2022, 21(1), e13517
  
• ADP-ribosyltransferases, an update on function and nomenclature.
  Lüscher B, Ahel I, Altmeyer M, Ashworth A, Bai P, Chang P, Cohen M, Corda D, Dantzer F, Daugherty MD, Dawson TM, Dawson VL, Deindl S, Fehr AR, Feijs KLH, Filippov DV, Gagné JP, Grimaldi G, Guettler S, Hoch NC, Hottiger MO, Korn P, Kraus WL, Ladurner A, Lehtiö L, Leung AKL, Lord CJ, Mangerich A, Matic I, Matthews J, Moldovan GL, Moss J, Natoli G, Nielsen ML, Niepel M, Nolte F, Pascal J, Paschal BM, Pawłowski K, Poirier GG, Smith S, Timinszky G, Wang ZQ, Yélamos J, Yu X, Zaja R, Ziegler M
  FEBS J 2022, 289(23), 7399-410
  
• Role of CD44 in metastasis formation of spontaneous osteosarcoma of Nf2-deficient mice
  Ma J
  Dissertation 2022, Jena, Germany
  
• Hanging the coat on a collar: Same function but different localization and mechanism for COPII.
  Malis Y, Hirschberg K, Kaether C
  Bioessays 2022, 44(10), e2200064
  
• Meprin β knockout reduces brain Aβ levels and rescues learning and memory impairments in the APP/lon mouse model for Alzheimer's disease.
  Marengo L, Armbrust F, Schoenherr C, Storck SE, Schmitt U, Zampar S, Wirths O, Altmeppen H, Glatzel M, Kaether C, Weggen S, Becker-Pauly C, Pietrzik CU
  Cell Mol Life Sci 2022, 79(3), 168
  
• Global metabolic alterations in colorectal cancer cells during irinotecan-induced DNA replication stress.
  Marx C, Sonnemann J, Maddocks ODK, Marx-Blümel L, Beyer M, Hoelzer D, Thierbach R, Maletzki C, Linnebacher M, Heinzel T, Krämer OH
  Cancer Metab 2022, 10(1), 10
  
• Telomerase deficiency reflects age-associated changes in CD4+ T cells.
  Matthe DM, Thoma OM, Sperka T, Neurath MF, Waldner MJ
  Immun Ageing 2022, 19(1), 16
  
• Meeting Report: Aging Research and Drug Discovery
  Meron E, Thaysen M, Angeli S, Antebi A, Barzilai N, Baur JA, Bekker-Jensen S, Birkisdottir M, Bischof E, Bruening J, Brunet A, Buchwalter A, Cabreiro F, Cai S, Chen BH, Ermolaeva M, Ewald Collin Y, Ferrucci L, Florian MC, Fortney K, Freund A, Georgievskaya A, Gladyshev VN, Glass D, Golato T, Gorbunova V, Hoejimakers J, Houtkooper RH, Jager S, Jaksch F, Janssens G, Borch Jensen M, Kaeberlein M, Karsenty G, de Keizer P, Kennedy B, Kirkland JL, Kjaer M, Kroemer G, Lee KF, Lemaitre JM, Liaskos D, Longo VD, Lu YX, MacArthur MR, Maier AB, Manakanatas C, Mitchell SJ, Moskalev A, Niedernhofer L, Ozerov I, Partridge L, Passegué E, Petr MA, Peyer J, Radenkovic D, Rando TA, Rattan S, Riedel CG, Rudolph L, Ai R, Serrano M, Schumacher B, Sinclair DA, Smith R, Suh Y, Taub P, Trapp A, Trendelenburg AU, Valenzano DR, Verburgh K, Verdin E, Vijg J, Westendorp RGJ, Zonari A, Bakula D, Zhavoronkov A, Scheibye-Knudsen M
  Aging (Albany NY) 2022, 14(2), 530–543
  
• Correction to: The androgen receptor-lncRNASAT1-AKT-p15 axis mediates androgen-induced cellular senescence in prostate cancer cells.
  Mirzakhani K, Kallenbach J, Rasa SMM, Ribaudo F, Ungelenk M, Ehsani M, Gong W, Gassler N, Leeder M, Grimm MO, Neri F, Baniahmad A
  Oncogene 2022, 41(7), 1071-7
  
• Context sensitive neural networks for the classification of DNA, RNA and protein sequences
  Mock F
  Dissertation 2022, Jena, Germany
  
• Taxonomic classification of DNA sequences beyond sequence similarity using deep neural networks.
  Mock F, Kretschmer F, Kriese A, Böcker S, Marz M
  Proc Natl Acad Sci U S A 2022, 119(35), e2122636119
  
• Sendungsregister
  Mohnheim F, Weinzierl I, Hoppe B, Bösger J
  2022, URL https://github.com/mohnbroet
  
• Small Extracellular Vesicles from Peripheral Blood of Aged Mice Pass the Blood-Brain Barrier and Induce Glial Cell Activation.
  Morales-Prieto DM, Murrieta-Coxca JM, Stojiljkovic M, Diezel C, Streicher PE, Henao-Restrepo JA, Röstel F, Lindner J, Witte OW, Weis S, Schmeer C, Marz M
  Cells 2022, 11(4), 625
  
• Enhanced C/EBPβ function promotes hypertrophic versus hyperplastic fat tissue growth and prevents steatosis in response to high-fat diet feeding.
  Müller* C, Zidek* LM, Eichwald S, Kortman G, Koster MH, Calkhoven CF
  Elife 2022, 11, e62625. * equal contribution
  
• CANTATA-prediction of missing links in Boolean networks using genetic programming.
  Müssel C, Ikonomi N, Werle SD, Weidner FM, Maucher M, Schwab** JD, Kestler** HA
  Bioinformatics 2022, 38(21), 4893 ** co-senior authors
  
• Carbon fixation rates in groundwater similar to those in oligotrophic marine systems
  Overholt WA, Trumbore S, Xu X, Bornemann TLV, Probst AJ, Krüger M, Herrmann M, Thamdrup B, Bristow LA, Taubert M, Schwab VF, Hölzer M, Marz M, Küsel K
  NAT GEOSCI 2022, 15, 561–567
  
• Peripheral blasts are associated with responses to ruxolitinib and outcomes in patients with chronic-phase myelofibrosis.
  Palandri F, Bartoletti D, Iurlo A, Bonifacio M, Abruzzese E, Caocci G, Elli EM, Auteri G, Tiribelli M, Polverelli N, Miglino M, Heidel FH, Tieghi A, Benevolo G, Beggiato E, Fava C, Cavazzini F, Pugliese N, Binotto G, Bosi C, Martino B, Crugnola M, Ottaviani E, Micucci G, Trawinska MM, Cuneo A, Bocchia M, Krampera M, Pane F, Lemoli RM, Cilloni D, Vianelli N, Cavo M, Palumbo GA, Breccia M
  Cancer 2022, 128(13), 2449-54
  
• Real-world clinical outcomes of patients with myelofibrosis treated with ruxolitinib: a medical record review.
  Passamonti F, Heidel FH, Parikh RC, Ajmera M, Tang D, Nadal JA, Davis KL, Abraham P
  Future Oncol 2022, 18(18), 2217
  
• YBX1 mediates translation of oncogenic transcripts to control cell competition in AML.
  Perner F, Schnoeder TM, Xiong Y, Jayavelu AK, Mashamba N, Santamaria NT, Huber N, Todorova K, Hatton C, Perner B, Eifert T, Murphy C, Hartmann M, Hoell JI, Schröder N, Brandt S, Hochhaus A, Mertens PR, Mann M, Armstrong SA, Mandinova A, Heidel FH
  Leukemia 2022, 36(2), 426-37
  
• A gene dosage-dependent effect unveils NBS1 as both a haploinsufficient tumour suppressor and an essential gene for SHH-medulloblastoma.
  Petroni M, Fabretti F, Giulio SD, Robilant VND, Monica VL, Moretti M, Belardinilli F, Bufalieri F, Anna C, Paci P, Corsi A, Smaele ED, Coni S, Canettieri G, Marcotullio LD, Wang ZQ, Giannini G
  Neuropathol Appl Neurobiol 2022, 48(6), e12837
  
• Resilience integrates concepts in aging research.
  Promislow D, Anderson RM, Scheffer M, Crespi B, DeGregori J, Harris K, Horowitz BN, Levine ME, Riolo MA, Schneider DS, Spencer SL, Valenzano DR, Hochberg ME
  iScience 2022, 25(5), 104199 published during change of institution
  
• The genomic and transcriptional landscape of primary central nervous system lymphoma.
  Radke J, Ishaque N, Koll R, Gu Z, Schumann E, Sieverling L, Uhrig S, Hübschmann D, Toprak UH, López C, Hostench XP, Borgoni S, Juraeva D, Pritsch F, Paramasivam N, Balasubramanian GP, Schlesner M, Sahay S, Weniger M, Pehl D, Radbruch H, Osterloh A, Korfel A, Misch M, Onken J, Faust K, Vajkoczy P, Moskopp D, Wang Y, Jödicke A, Trümper L, Anagnostopoulos I, Lenze D, Küppers R, Hummel M, Schmitt CA, Wiestler OD, Wolf S, Unterberg A, Eils R, Herold-Mende C, Brors B, ICGC MMML-Seq Consortium, Siebert R, Wiemann S, Heppner FL
  Nat Commun 2022, 13(1), 2558
  
• The sources of sex differences in aging in annual fishes.
  Reichard M, Blažek R, Žák J, Cellerino A, Polačik M
  J Anim Ecol 2022, 91(3), 540-50
  
• Aging Activates the Immune System and Alters the Regenerative Capacity in the Zebrafish Heart.
  Reuter H, Perner B, Wahl F, Rohde L, Koch P, Groth M, Buder K, Englert C
  Cells 2022, 11(3), 345. doi: 10.3390/cells11030345
  
• Rhodopsins build up the birefringent bodies of the dinoflagellate Oxyrrhis marina.
  Rhiel E, Hoischen C, Westermann M
  Protoplasma 2022, 259(4), 1047-60
  
• Molecular Sexing of Nothobranchius furzeri Embryos and Larvae.
  Richter A, Krug J, Englert C
  Cold Spring Harb Protoc 2022, 2022(12), doi: 10.1101/pdb.prot107782
  
• Functional profiling of long intergenic non-coding RNAs in fission yeast.
  Rodriguez-Lopez M, Anver S, Cotobal C, Kamrad S, Malecki M, Correia-Melo C, Hoti M, Townsend S, Marguerat S, Pong SK, Wu MY, Montemayor L, Howell M, Ralser M, Bähler J
  Elife 2022, 11, e76000
  
• Correction: Functional profiling of long intergenic non-coding RNAs in fission yeast.
  Rodriguez-Lopez M, Anver S, Cotobal C, Kamrad S, Malecki M, Correia-Melo C, Hoti M, Townsend S, Marguerat S, Pong SK, Wu MY, Montemayor L, Howell M, Ralser M, Bähler J
  Elife 2022, 11
  
• Pollutants corrupt resilience pathways of aging in the nematode C. elegans.
  Scharf A, Limke A, Guehrs KH, von Mikecz A
  iScience 2022, 25(9), 105027
  
• Restoring Age-Related Cognitive Decline through Environmental Enrichment: A Transcriptomic Approach.
  Schmidt S, Haase M, Best L, Groth M, Lindner J, Witte OW, Kaleta C, Frahm C
  Cells 2022, 11(23), 3864
  
• Association of Telomere Length With Risk of Disease and Mortality.
  Schneider CV, Schneider KM, Teumer A, Rudolph KL, Hartmann D, Rader DJ, Strnad P
  JAMA INTERN MED 2022, 182(3), 291-300
  
• Significance of men's health in long-term survivors of allogeneic stem cell transplantation.
  Schneidewind L, Neumann T, Peters N, Kranz J, Probst KA, Heidel FH, Hakenberg OW, Krüger W
  Bone Marrow Transplant 2022, 57(6), 998
  
• PLCG1 is required for AML1-ETO leukemia stem cell self-renewal.
  Schnoeder TM, Schwarzer A, Jayavelu AK, Hsu CJ, Kirkpatrick J, Döhner K, Perner F, Eifert T, Huber N, Arreba-Tutusaus P, Dolnik A, Assi SA, Nafria M, Jiang L, Dai YT, Chen Z, Chen SJ, Kellaway SG, Ptasinska A, Ng ES, Stanley EG, Elefanty AG, Buschbeck M, Bierhoff H, Brodt S, Matziolis G, Fischer KD, Hochhaus A, Chen CW, Heidenreich O, Mann M, Lane SW, Bullinger L, Ori A, Eyss Bv, Bonifer C, Heidel F
  Blood 2022, 139(7), 1080-97
  
• A comparative study of pre-alpha islands in the entorhinal cortex from selected primates and in lissencephaly.
  Schön M, Nosanova A, Jacob C, Kraus JM, Kestler HA, Mayer B, Feldengut S, Amunts K, Del Tredici K, Boeckers TM, Braak H
  J Comp Neurol 2022, 530(4), 683-704
  
• The EMT transcription factor ZEB1 governs a fitness-promoting but vulnerable DNA replication stress response.
  Schuhwerk H, Kleemann J, Gupta P, van Roey R, Armstark I, Kreileder M, Feldker N, Ramesh V, Hajjaj Y, Fuchs K, Mahapatro M, Hribersek M, Volante M, Groenewoud A, Engel FB, Ceppi P, Eckstein M, Hartmann A, Müller F, Kroll T, Stemmler MP, Brabletz S, Brabletz T
  Cell Rep 2022, 41(11), 111819
  
• Disrupting PTPRJ transmembrane-mediated oligomerization counteracts oncogenic receptor tyrosine kinase FLT3 ITD.
  Schwarz M, Rizzo S, Paz WE, Kresinsky A, Thévenin D, Müller JP
  Front Oncol 2022, 12, 1017947
  
• Weighted average ensemble-based semantic segmentation in biological electron microscopy images.
  Shaga Devan K, Kestler HA, Read C, Walther P
  Histochem Cell Biol 2022, 158(5), 447–462
  
• A genome-wide CRISPR activation screen reveals Hexokinase 1 as a critical factor in promoting resistance to multi-kinase inhibitors in hepatocellular carcinoma cells.
  Sofer S, Lamkiewicz K, Armoza Eilat S, Partouche S, Marz M, Moskovits N, Stemmer SM, Shlomai A, Sklan EH
  FASEB J 2022, 36(3), e22191
  
• The chromatin remodeling protein ATRX positively regulates IRF3-dependent type I interferon production and interferon-induced gene expression.
  Stilp AC, Scherer M, König P, Fürstberger A, Kestler HA, Stamminger T
  PLoS Pathog 2022, 18(8), e1010748
  
• Sex chromosome differentiation via changes in the Y chromosome repeat landscape in African annual killifishes Nothobranchius furzeri and N. kadleci.
  Štundlová J, Hospodářská M, Lukšíková K, Voleníková A, Pavlica T, Altmanová M, Richter A, Reichard M, Dalíková M, Pelikánová Š, Marta A, Simanovsky SA, Hiřman M, Jankásek M, Dvořák T, Bohlen J, Ráb P, Englert C, Nguyen P, Sember A
  Chromosome Res 2022, 30(4), 309-33
  
• The Mating Pattern of Captive Naked Mole-Rats Is Best Described by a Monogamy Model
  Szafranski* K, Wetzel* M, Holtze S, Büntjen I, Lieckfeldt D, Ludwig A, Huse K, Platzer M, Hildebrandt T
  FRONT ECOL EVOL 2022, 10, 855688 * equal contribution
  
• PI(18:1/18:1) is a SCD1-derived lipokine that limits stress signaling.
  Thürmer M, Gollowitzer A, Pein H, Neukirch K, Gelmez E, Waltl L, Wielsch N, Winkler R, Löser K, Grander J, Hotze M, Harder S, Döding A, Meßner M, Troisi F, Ardelt M, Schlüter H, Pachmayr J, Gutiérrez-Gutiérrez Ó, Rudolph KL, Thedieck K, Schulze-Späte U, González-Estévez C, Kosan C, Svatoš A, Kwiatkowski M, Koeberle A
  Nat Commun 2022, 13(1), 2982
  
• Comparative Panel Sequencing of DNA Variants in cf-, ev- and tumorDNA for Pancreatic Ductal Adenocarcinoma Patients.
  Waldenmaier M, Schulte L, Schönfelder J, Fürstberger A, Kraus JM, Daiss N, Seibold T, Morawe M, Ettrich TJ, Kestler HA, Kahlert C, Seufferlein T, Eiseler T
  Cancers (Basel) 2022, 14(4), 1074
  
• Characterization of SARS-CoV-2 infection clusters based on integrated genomic surveillance, outbreak analysis and contact tracing in an urban setting.
  Walker A, Houwaart T, Finzer P, Ehlkes L, Tyshaieva A, Damagnez M, Strelow D, Duplessis A, Nicolai J, Wienemann T, Tamayo T, Kohns Vasconcelos M, Hülse L, Hoffmann K, Lübke N, Hauka S, Andree M, Däumer MP, Thielen A, Kolbe-Busch S, Göbels K, Zotz R, Pfeffer K, Timm J, Dilthey AT, German COVID-19 OMICS Initiative (DeCOI)
  Clin Infect Dis 2022, 74(6), 1039-46
  
• The Central Domain of MCPH1 Controls Development of the Cerebral Cortex and Gonads in Mice.
  Wang Y, Zong W, Sun W, Chen C, Wang** ZQ, Li** T
  Cells 2022, 11(17), 2715 ** co-corresponding authors
  
• Response to the letter to the editor: On the feasibility of dynamical analysis of network models of biochemical regulation.
  Weidner FM, Schwab JD, Werle SD, Ikonomi N, Lausser L, Kestler HA
  Bioinformatics 2022, 38(14), 3676
  
• Identification of dynamic driver sets controlling phenotypical landscapes.
  Werle SD, Ikonomi N, Schwab JD, Kraus JM, Weidner FM, Rudolph KL, Pfister AS, Schuler R, Kühl M, Kestler HA
  Comput Struct Biotechnol J 2022, 20, 1603-17
  
• Backbone and side chain resonance assignment of the intrinsically disordered human DBNDD1 protein.
  Wiedemann C, Obika KB, Liebscher S, Jirschitzka J, Ohlenschläger O, Bordusa F
  Biomol NMR Assign 2022, 16(2), 237-46
  
• Love your Data! (Poster)
  Willbrandt J
  2022, URL https://zenodo.org/record/71
  
• Biological underpinnings of sex differences in neurological disorders.
  Winek K, Tzur Y, Soreq H
  Int Rev Neurobiol 2022, 164, 27
  
• Brain–body communication in stroke - Mens sana in corpore sano
  Winek** K, Cuervo Zanatta** D, Zille** M
  NEUROFORUM 2022, 28(1), 31–39 ** co-corresponding authors
  
• De novo identification of maximally deregulated subnetworks based on multi-omics data with DeRegNet.
  Winkler S, Winkler I, Figaschewski M, Tiede T, Nordheim A, Kohlbacher O
  BMC Bioinformatics 2022, 23(1), 139
  
• Inorganic sulfur fixation via a new homocysteine synthase allows yeast cells to cooperatively compensate for methionine auxotrophy.
  Yu JSL, Heineike BM, Hartl J, Aulakh SK, Correia-Melo C, Lehmann A, Lemke O, Agostini F, Lee CT, Demichev V, Messner CB, Mülleder M, Ralser M
  PLoS Biol 2022, 20(12), e3001912
  
• Microbial communities form rich extracellular metabolomes that foster metabolic interactions and promote drug tolerance.
  Yu* JSL, Correia-Melo* C, Zorrilla F, Herrera-Dominguez L, Wu MY, Hartl J, Campbell K, Blasche S, Kreidl M, Egger AS, Messner CB, Demichev V, Freiwald A, Mülleder M, Howell M, Berman J, Patil KR, Alam* MT, Ralser* M
  NAT MICROBIOL 2022, 7(4), 542–555 * equal contribution
  
• The Role of Non-Coding RNAs in the Human Placenta.
  Žarković* M, Hufsky* F, Markert** UR, Marz** M
  Cells 2022, 11(9), 1588 * equal contribution, ** co-senior authors
  
• Picorna-Like Viruses of the Havel River, Germany.
  Zell R, Groth M, Selinka L, Selinka HC
  Front Microbiol 2022, 13, 865287
  

Publications 2021:

• Nicotinamide for the treatment of heart failure with preserved ejection fraction.
  Abdellatif M, Trummer-Herbst V, Koser F, Durand S, Adão R, Vasques-Nóvoa F, Freundt JK, Voglhuber J, Pricolo MR, Kasa M, Türk C, Aprahamian F, Herrero-Galán E, Hofer SJ, Pendl T, Rech L, Kargl J, Anto-Michel N, Ljubojevic-Holzer S, Schipke J, Brandenberger C, Auer M, Schreiber R, Koyani CN, Heinemann A, Zirlik A, Schmidt A, von Lewinski D, Scherr D, Rainer PP, von Maltzahn J, Mühlfeld C, Krüger M, Frank S, Madeo F, Eisenberg T, Prokesch A, Leite-Moreira AF, Lourenço AP, Alegre-Cebollada J, Kiechl S, Linke WA, Kroemer G, Sedej S
  Sci Transl Med 2021, 13(580), eabd7064
  
• BCL3 couples cancer stem cell enrichment with pancreatic cancer molecular subtypes.
  Ai J, Wörmann SM, Görgülü K, Vallespinos M, Zagorac S, Alcala S, Wu N, Kabacaoglu D, Berninger A, Navarro D, Kaya-Aksoy E, Ruess DA, Ciecielski KJ, Kowalska M, Demir EI, Ceyhan GO, Heid I, Braren R, Riemann M, Schreiner S, Hofmann S, Kutschke M, Jastroch M, Slotta-Huspenina J, Muckenhuber A, Schlitter AM, Schmid RM, Steiger K, Diakopoulos KN, Lesina M, Sainz B, Algül H
  Gastroenterology 2021, 161(1), 318-32
  
• Large-Scale Recombinant Production of the SARS-CoV-2 Proteome for High-Throughput and Structural Biology Applications.
  Altincekic N, Korn SM, Qureshi NS, Dujardin M, Ninot-Pedrosa M, Abele R, Abi Saad MJ, Alfano C, Almeida FCL, Alshamleh I, de Amorim GC, Anderson TK, Anobom CD, Anorma C, Bains JK, Bax A, Blackledge M, Blechar J, Böckmann A, Brigandat L, Bula A, Bütikofer M, Camacho-Zarco AR, Carlomagno T, Caruso IP, Ceylan B, Chaikuad A, Chu F, Cole L, Crosby MG, de Jesus V, Dhamotharan K, Felli IC, Ferner J, Fleischmann Y, Fogeron ML, Fourkiotis NK, Fuks C, Fürtig B, Gallo A, Gande SL, Gerez JA, Ghosh D, Gomes-Neto F, Gorbatyuk O, Guseva S, Hacker C, Häfner S, Hao B, Hargittay B, Henzler-Wildman K, Hoch JC, Hohmann KF, Hutchison MT, Jaudzems K, Jović K, Kaderli J, Kalniņš G, Kaņepe I, Kirchdoerfer RN, Kirkpatrick J, Knapp S, Krishnathas R, Kutz F, Zur Lage S, Lambertz R, Lang A, Laurents D, Lecoq L, Linhard V, Löhr F, Malki A, Bessa LM, Martin RW, Matzel T, Maurin D, McNutt SW, Mebus-Antunes NC, Meier BH, Meiser N, Mompeán M, Monaca E, Montserret R, Mariño Perez L, Moser C, Muhle-Goll C, Neves-Martins TC, Ni X, Norton-Baker B, Pierattelli R, Pontoriero L, Pustovalova Y, Ohlenschläger O, Orts J, Da Poian AT, Pyper DJ, Richter C, Riek R, Rienstra CM, Robertson A, Pinheiro AS, Sabbatella R, Salvi N, Saxena K, Schulte L, Schiavina M, Schwalbe H, Silber M, Almeida MdS, Sprague-Piercy MA, Spyroulias GA, Sreeramulu S, Tants JN, Tārs K, Torres F, Töws S, Treviño MÁ, Trucks S, Tsika AC, Varga K, Wang Y, Weber ME, Weigand JE, Wiedemann C, Wirmer-Bartoschek J, Wirtz Martin MA, Zehnder J, Hengesbach M, Schlundt A
  Front Mol Biosci 2021, 8, 653148
  
• Predicting disease progression in behavioral variant frontotemporal dementia.
  Anderl-Straub S, Lausser L, Lombardi J, Uttner I, Fassbender K, Fliessbach K, Huppertz HJ, Jahn H, Kornhuber J, Obrig H, Schneider A, Semler E, Synofzik M, Danek A, Prudlo J, Kassubek J, Landwehrmeyer B, Lauer M, Volk AE, Wiltfang J, Diehl-Schmid J, Ludolph AC, Schroeter ML, Kestler HA, Otto M, FTLD consortium
  Alzheimers Dement (Amst) 2021, 13(1), e12262
  
• RINT1 Regulates SUMOylation and the DNA Damage Response to Preserve Cellular Homeostasis in Pancreatic Cancer.
  Arnold F, Gout J, Wiese H, Weissinger SE, Roger E, Perkhofer L, Walter K, Scheible J, Prelli Bozzo C, Lechel A, Ettrich TJ, Azoitei N, Hao L, Fürstberger A, Kaminska EK, Sparrer KMJ, Rasche V, Wiese S, Kestler HA, Möller P, Seufferlein T, Frappart PO, Kleger A
  Cancer Res 2021, 81(7), 1758-74
  
• Functional Genomic Screening During Somatic Cell Reprogramming Identifies DKK3 as a Roadblock of Organ Regeneration.
  Arnold F, Mahaddalkar PU, Kraus JM, Zhong X, Bergmann W, Srinivasan D, Gout J, Roger E, Beutel AK, Zizer E, Tharehalli U, Daiss N, Russell R, Perkhofer L, Oellinger R, Lin Q, Azoitei N, Weiss FU, Lerch MM, Liebau S, Katz SF, Lechel A, Rad R, Seufferlein T, Kestler HA, Ott M, Sharma AD, Hermann PC, Kleger A
  Adv Sci (Weinh) 2021, 8(14), 2100626
  
• Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients.
  Aschenbrenner AC, Mouktaroudi M, Krämer B, Oestreich M, Antonakos N, Nuesch-Germano M, Gkizeli K, Bonaguro L, Reusch N, Baßler K, Saridaki M, Knoll R, Pecht T, Kapellos TS, Doulou S, Kröger C, Herbert M, Holsten L, Horne A, Gemünd ID, Rovina N, Agrawal S, Dahm K, van Uelft M, Drews A, Lenkeit L, Bruse N, Gerretsen J, Gierlich J, Becker M, Händler K, Kraut M, Theis H, Mengiste S, De Domenico E, Schulte-Schrepping J, Seep L, Raabe J, Hoffmeister C, ToVinh M, Keitel V, Rieke G, Talevi V, Skowasch D, Aziz NA, Pickkers P, van de Veerdonk FL, Netea MG, Schultze JL, Kox M, Breteler MMB, Nattermann J, Koutsoukou A, Giamarellos-Bourboulis EJ, Ulas T, German COVID-19 Omics Initiative (DeCOI)
  Genome Med 2021, 13(1), 7
  
• J-domain proteins interaction with neurodegenerative disease-related proteins.
  Ayala Mariscal SM, Kirstein J
  Exp Cell Res 2021, 399(2), 112491
  
• Analysis of microRNA expression reveals convergent evolution of the molecular control of diapause in annual fish
  Barth E, Baumgart M, Dolfi L, Cui R, Groth M, Ripa R, Savino A, R.Valenzano D, Marz M, Cellerino A
  Research Square 2021, https://doi.org/10.21203/rs.3.rs
  
• Age-dependent expression changes of circadian system-related genes reveal a potentially conserved link to aging.
  Barth E, Srivastava A, Wengerodt D, Stojiljkovic M, Axer H, Witte OW, Kretz** A, Marz** M
  Aging (Albany NY) 2021, 13(24), 25694-716
  
• Life expectancy, family constellation and stress in giant mole-rats ( Fukomys mechowii).
  Begall S, Nappe R, Hohrenk L, Schmidt TC, Burda H, Sahm A, Szafranski K, Dammann P, Henning Y
  Philos Trans R Soc Lond B Biol Sci 2021, 376(1823), 20200207
  
• Corrigendum for J Clin Invest. 2012;122(6) 2283–2288: Transient telomere dysfunction induces chromosomal instability and promotes carcinogenesis.
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• Favorable outcome of NUTM1-rearranged infant and pediatric B cell precursor acute lymphoblastic leukemia in a collaborative international study.
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• β-Glucans as Dietary Supplement to Improve Locomotion and Mitochondrial Respiration in a Model of Duchenne Muscular Dystrophy.
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• Epigenetic Modifications Associated with Maternal Anxiety during Pregnancy and Children's Behavioral Measures.
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• A marine Chlamydomonas sp. emerging as an algal model.
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• The economical lifestyle of CPR bacteria in groundwater allows little preference for environmental drivers.
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• Granulocyte colony-stimulating factor acts on lymphoid-biased, short-term hematopoietic stem cells.
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• Transcription factor RFX7 governs a tumor suppressor network in response to p53 and stress.
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• Ancestral transoceanic colonization and recent population reduction in a nonannual killifish from the Seychelles archipelago.
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• Merlin cooperates with neurofibromin and Spred1 to suppress the Ras-Erk pathway.
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• Highlights from the 16th International Society for Computational Biology Student Council Symposium 2020.
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• Iron Oxide Nanoparticles Carrying 5-Fluorouracil in Combination with Magnetic Hyperthermia Induce Thrombogenic Collagen Fibers, Cellular Stress, and Immune Responses in Heterotopic Human Colon Cancer in Mice.
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• Molekularbiologische Beschreibung des Alterungsprozesses
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• Common genetic associations between age-related diseases.
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• Anti-Proliferative and Apoptotic Effect of Gemini Curcumin in p53-Wild Type and p53-Mutant Colorectal Cancer Cell Lines.
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• Transposable Element Landscape in Drosophila Populations Selected for Longevity.
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• Functional conservation in genes and pathways linking ageing and immunity.
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• Modulation of FLT3-ITD Localization and Targeting of Distinct Downstream Signaling Pathways as Potential Strategies to Overcome FLT3-Inhibitor Resistance.
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• Altered Glycosylation in the Aging Heart.
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• Virus Bioinformatics
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• The Hematopoietic Bone Marrow Niche Ecosystem.
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• Transcriptomic profiling of long- and short-lived mutant mice implicates mitochondrial metabolism in ageing and shows signatures of normal ageing in progeroid mice.
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• Novel amyloid-beta pathology C. elegans model reveals distinct neurons as seeds of pathogenicity.
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• Identifying Cell-Type-Specific Metabolic Signatures Using Transcriptome and Proteome Analyses.
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• Kidney Dysfunction Is Associated with Thrombosis and Disease Severity in Myeloproliferative Neoplasms: Implications from the German Study Group for MPN Bioregistry.
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• ITN-VIROINF: Understanding (Harmful) Virus-Host Interactions by Linking Virology and Bioinformatics.
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• Synergistic targeting and resistance to PARP inhibition in DNA damage repair-deficient pancreatic cancer.
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• MLL1 is required for maintenance of intestinal stem cells.
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• Epigenetic State Changes Underlie Metabolic Switch in Mouse Post-Infarction Border Zone Cardiomyocytes.
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• Power and Weakness of Repetition - Evaluating the Phylogenetic Signal From Repeatomes in the Family Rosaceae With Two Case Studies From Genera Prone to Polyploidy and Hybridization ( Rosa and Fragaria).
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• High Yap and Mll1 promote a persistent regenerative cell state induced by Notch signaling and loss of p53.
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• Alternative Animal Models of Aging Research
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• PoSeiDon: a Nextflow pipeline for the detection of evolutionary recombination events and positive selection.
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• The Role of MacroH2A Histone Variants in Cancer.
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• Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas.
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• Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.
  Hufsky F, Lamkiewicz K, Almeida A, Aouacheria A, Arighi C, Bateman A, Baumbach J, Beerenwinkel N, Brandt C, Cacciabue M, Chuguransky S, Drechsel O, Finn RD, Fritz A, Fuchs S, Hattab G, Hauschild AC, Heider D, Hoffmann M, Hölzer M, Hoops S, Kaderali L, Kalvari I, von Kleist M, Kmiecinski R, Kühnert D, Lasso G, Libin P, List M, Löchel HF, Martin MJ, Martin R, Matschinske J, McHardy AC, Mendes P, Mistry J, Navratil V, Nawrocki EP, O'Toole ÁN, Ontiveros-Palacios N, Petrov AI, Rangel-Pineros G, Redaschi N, Reimering S, Reinert K, Reyes A, Richardson L, Robertson DL, Sadegh S, Singer JB, Theys K, Upton C, Welzel M, Williams L, Marz M
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• Fetal-like reversion in the regenerating intestine is regulated by mesenchymal Asporin
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• ATP/IL-33-triggered hyperactivation of mast cells results in an amplified production of pro-inflammatory cytokines and eicosanoids.
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• Publisher Correction: SIRT7: an influence factor in healthy aging and the development of age-dependent myeloid stem-cell disorders.
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• Rfam 14: expanded coverage of metagenomic, viral and microRNA families.
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• DNA-binding properties of the MADS-domain transcription factor SEPALLATA3 and mutant variants characterized by SELEX-seq.
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• Reduced Rate of Inpatient Hospital Admissions in 18 German University Hospitals During the COVID-19 Lockdown.
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• Vesicle-bound regulatory RNAs are associated with tissue aging
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• Digitalization of adverse event management in oncology to improve treatment outcome-A prospective study protocol.
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• Large-scale characterization of sex pheromone communication systems in Drosophila.
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• Human population dynamics and Yersinia pestis in ancient northeast Asia.
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• Early IFN-α signatures and persistent dysfunction are distinguishing features of NK cells in severe COVID-19.
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• Backbone and nearly complete side-chain chemical shift assignments of the human death-associated protein 1 (DAP1).
  Wiedemann C, Voigt J, Jirschitzka J, Häfner S, Ohlenschläger O, Bordusa F
  Biomol NMR Assign 2021, 15(1), 91-7
  
• Regulators of cholinergic signaling in disorders of the central nervous system.
  Winek K, Soreq H, Meisel A
  J Neurochem 2021, 158(6), 1425-38
  
• p63 and p53: Collaborative Partners or Dueling Rivals?
  Woodstock DL, Sammons MA, Fischer M
  Front Cell Dev Biol 2021, 9, 701986
  
• Shorter Leukocyte Telomere Length Is Associated with Worse Survival of Patients with Bladder Cancer and Renal Cell Carcinoma.
  Zheng X, Wezel F, Azoitei A, Meessen S, Wang W, Najjar G, Wang X, Kraus JM, Kestler HA, John A, Zengerling F, Bolenz C, Günes C
  Cancers (Basel) 2021, 13(15), 3774
  

Publications 2020:

• Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.
  Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group, PCAWG Consortium
  Nat Genet 2020, 52(3), 294-305
  
• The repertoire of mutational signatures in human cancer.
  Alexandrov LB, Kim J, Haradhvala NJ, Huang MN, Tian Ng AW, Wu Y, Boot A, Covington KR, Gordenin DA, Bergstrom EN, Islam SMA, Lopez-Bigas N, Klimczak LJ, McPherson JR, Morganella S, Sabarinathan R, Wheeler DA, Mustonen V, PCAWG Mutational Signatures Working Group, Getz G, Rozen SG, Stratton MR, PCAWG Consortium
  Nature 2020, 578(7793), 94-101
  
• Protein Kinase D1, Reduced in Human Pancreatic Tumors, Increases Secretion of Small Extracellular Vesicles From Cancer Cells That Promote Metastasis to Lung in Mice.
  Armacki M, Polaschek S, Waldenmaier M, Morawe M, Ruhland C, Schmid R, Lechel A, Tharehalli U, Steup C, Bektas Y, Li H, Kraus JM, Kestler HA, Kruger S, Ormanns S, Walther P, Eiseler T, Seufferlein T
  Gastroenterology 2020, 159(3), 1019-1035.e22
  
• Distinct effects of ruxolitinib and interferon-alpha on murine JAK2V617F myeloproliferative neoplasm hematopoietic stem cell populations.
  Austin RJ, Straube J, Bruedigam C, Pali G, Jacquelin S, Vu T, Green J, Gräsel J, Lansink L, Cooper L, Lee SJ, Chen NT, Lee CW, Haque A, Heidel FH, D'Andrea R, Hill GR, Mullally A, Milsom MD, Bywater M, Lane SW
  Leukemia 2020, 34(4), 1075-89
  
• Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19.
  Bernardes JP, Mishra N, Tran F, Bahmer T, Best L, Blase JI, Bordoni D, Franzenburg J, Geisen U, Josephs-Spaulding J, Köhler P, Künstner A, Rosati E, Aschenbrenner AC, Bacher P, Baran N, Boysen T, Brandt B, Bruse N, Dörr J, Dräger A, Elke G, Ellinghaus D, Fischer J, Forster M, Franke A, Franzenburg S, Frey N, Friedrichs A, Fuß J, Glück A, Hamm J, Hinrichsen F, Hoeppner MP, Imm S, Junker R, Kaiser S, Kan YH, Knoll R, Lange C, Laue G, Lier C, Lindner M, Marinos G, Markewitz R, Nattermann J, Noth R, Pickkers P, Rabe KF, Renz A, Röcken C, Rupp J, Schaffarzyk A, Scheffold A, Schulte-Schrepping J, Schunk D, Skowasch D, Ulas T, Wandinger KP, Wittig M, Zimmermann J, Busch H, Hoyer BF, Kaleta C, Heyckendorf J, Kox M, Rybniker J, Schreiber S, Schultze JL, Rosenstiel P, HCA Lung Biological Network, Deutsche COVID-19 Omics Initiative (DeCOI)
  Immunity 2020, 53(6), 1296-1314.e9
  
• Modulation of FLT3 signal transduction through cytoplasmic cysteine residues indicates the potential for redox regulation.
  Böhmer A, Barz S, Schwab K, Kolbe U, Gabel A, Kirkpatrick J, Ohlenschläger O, Görlach M, Böhmer FD
  Redox Biol 2020, 28, 101325
  
• Extreme genomic volatility characterizes the evolution of the immunoglobulin heavy chain locus in cyprinodontiform fishes.
  Bradshaw WJ, Valenzano DR
  Proc Biol Sci 2020, 287(1927), 20200489
  
• Fibrosis and Immune Cell Infiltration Are Separate Events Regulated by Cell-Specific Receptor Notch3 Expression.
  Brandt S, Ballhause TM, Bernhardt A, Becker A, Salaru D, Le-Deffge HM, Fehr A, Fu Y, Philipsen L, Djudjaj S, Müller AJ, Kramann R, Ibrahim M, Geffers R, Siebel C, Isermann B, Heidel FH, Lindquist JA, Mertens PR
  J Am Soc Nephrol 2020, 31(11), 2589-608
  
• Spatially resolved analysis of FFPE tissue proteomes by quantitative mass spectrometry.
  Buczak K, Kirkpatrick JM, Truckenmueller F, Santinha D, Ferreira L, Roessler S, Singer S, Beck** M, Ori** A
  Nat Protoc 2020, 15(9), 2956-79 ** co-corresponding authors
  
• Pan-cancer analysis of whole genomes.
  Campbell PJ, Getz G, Korbel Jea, ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium
  Nature 2020, 578(7793), 82-93
  
• Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.
  Cortés-Ciriano I, Lee JJK, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, PCAWG Structural Variation Working Group, Park PJ, PCAWG Consortium
  Nat Genet 2020, 52(3), 331
  
• Nothobranchius furzeri (African Turquoise Killifish).
  Cui R, Willemsen D, Valenzano DR
  Trends Genet 2020, 36(7), 540-1
  
• Optimization of blocking conditions for fluorescent Western blot.
  Cui Y
  Anal Biochem 2020, 593, 113598
  
• Structure of an RNA aptamer in complex with the fluorophore tetramethylrhodamine.
  Duchardt-Ferner E, Juen M, Bourgeois B, Madl T, Kreutz C, Ohlenschläger O, Wöhnert J
  Nucleic Acids Res 2020, 48(2), 949-61
  
• Structural insights into the main S-layer unit of Deinococcus radiodurans reveal a massive protein complex with porin-like features.
  Farci D, Aksoyoglu MA, Farci SF, Bafna JA, Bodrenko I, Ceccarelli M, Kirkpatrick J, Winterhalter M, Kereïche S, Piano D
  J Biol Chem 2020, 295(13), 4224-36
  
• C-Fiber Loss as a Possible Cause of Neuropathic Pain in Schwannomatosis.
  Farschtschi SC, Mainka T, Glatzel M, Hannekum AL, Hauck M, Gelderblom M, Hagel C, Friedrich RE, Schuhmann MU, Schulz A, Morrison H, Kehrer-Sawatzki H, Luhmann J, Gerloff C, Bendszus M, Bäumer P, Mautner VF
  Int J Mol Sci 2020, 21(10), 3569
  
• An exploratory investigation of brain collateral circulation plasticity after cerebral ischemia in two experimental C57BL/6 mouse models.
  Foddis* M, Winek* K, Bentele K, Mueller S, Blumenau S, Reichhart N N, Crespo-Garcia S, Harnett D, Ivanov A, Meisel A, Joussen A, Strauss O, Beule D, Dirnagl U, Sassi C
  J Cereb Blood Flow Metab 2020, 40(2), 276-87 * equal contribution
  
• Ribosome Pausing at Inefficient Codons at the End of the Replicase Coding Region Is Important for Hepatitis C Virus Genome Replication.
  Gerresheim GK, Hess CS, Shalamova LA, Fricke M, Marz M, Andreev DE, Shatsky IN, Niepmann M
  Int J Mol Sci 2020, 21(18), 6955
  
• The evolutionary history of 2,658 cancers.
  Gerstung M, Jolly C, Leshchiner I, Dentro SC, Gonzalez S, Rosebrock D, Mitchell TJ, Rubanova Y, Anur P, Yu K, Tarabichi M, Deshwar A, Wintersinger J, Kleinheinz K, Vázquez-García I, Haase K, Jerman L, Sengupta S, Macintyre G, Malikic S, Donmez N, Livitz DG, Cmero M, Demeulemeester J, Schumacher S, Fan Y, Yao X, Lee J, Schlesner M, Boutros PC, Bowtell DD, Zhu H, Getz G, Imielinski M, Beroukhim R, Sahinalp SC, Ji Y, Peifer M, Markowetz F, Mustonen V, Yuan K, Wang W, Morris QD, PCAWG Evolution and Heterogeneity Working Group, Spellman PT, Wedge DC, Van Loo P, PCAWG Consortium
  Nature 2020, 578(7793), 122-8
  
• MLL1 is required for maintenance of intestinal stem cells and the expression of the cell adhesion molecule JAML
  Goveas N, Waskow C, Arndt K, Heuberger J, Zhang Q, Alexopoulou D, Dahl A, Birchmeier W, Anastassiadis K, Stewart AF, Kranz A
  bioRxiv 2020, https://doi.org/10.1101/2020.11.
  
• miR-182-5p is an evolutionarily conserved Tbx5 effector that impacts cardiac development and electrical activity in zebrafish.
  Guzzolino E, Pellegrino M, Ahuja N, Garrity D, D'Aurizio R, Groth M, Baumgart M, Hatcher CJ, Mercatanti A, Evangelista M, Ippolito C, Tognoni E, Fukuda R, Lionetti V, Pellegrini M, Cremisi F, Pitto L
  Cell Mol Life Sci 2020, 77(16), 3215-29
  
• Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.
  Haenig C, Atias N, Taylor AK, Mazza A, Schaefer MH, Russ J, Riechers SP, Jain S, Coughlin M, Fontaine JF, Freibaum BD, Brusendorf L, Zenkner M, Porras P, Stroedicke M, Schnoegl S, Arnsburg K, Boeddrich A, Pigazzini L, Heutink P, Taylor JP, Kirstein J, Andrade-Navarro MA, Sharan R, Wanker EE
  Cell Rep 2020, 32(7), 108050
  
• Comparative Genome Analysis of 33 Chlamydia Strains Reveals Characteristic Features of Chlamydia Psittaci and Closely Related Species.
  Hölzer M, Barf LM, Lamkiewicz K, Vorimore F, Lataretu M, Favaroni A, Schnee C, Laroucau K, Marz M, Sachse K
  Pathogens 2020, 9(11), 899
  
• Bi-allelic HPDL Variants Cause a Neurodegenerative Disease Ranging from Neonatal Encephalopathy to Adolescent-Onset Spastic Paraplegia.
  Husain RA, Grimmel M, Wagner M, Hennings JC, Marx C, Feichtinger RG, Saadi A, Rostásy K, Radelfahr F, Bevot A, Döbler-Neumann M, Hartmann H, Colleaux L, Cordts I, Kobeleva X, Darvish H, Bakhtiari S, Kruer MC, Besse A, Ng ACH, Chiang D, Bolduc F, Tafakhori A, Mane S, Ghasemi Firouzabadi S, Huebner AK, Buchert R, Beck-Woedl S, Müller AJ, Laugwitz L, Nägele T, Wang ZQ, Strom TM, Sturm M, Meitinger T, Klockgether T, Riess O, Klopstock T, Brandl U, Hübner CA, Deschauer M, Mayr JA, Bonnen PE, Krägeloh-Mann I, Wortmann SB, Haack TB
  Am J Hum Genet 2020, 107(2), 364-73
  
• The noncanonical small heat shock protein HSP-17 from Caenorhabditis elegans is a selective protein aggregase.
  Iburg M, Puchkov D, Rosas-Brugada IU, Bergemann L, Rieprecht U, Kirstein J
  J Biol Chem 2020, 295(10), 3064
  
• Awakening the HSC: Dynamic Modeling of HSC Maintenance Unravels Regulation of the TP53 Pathway and Quiescence.
  Ikonomi N, Kühlwein SD, Schwab JD, Kestler HA
  Front Physiol 2020, 11, 848
  
• Temporal changes in the gene expression heterogeneity during brain development and aging.
  Işıldak U, Somel M, Thornton JM, Dönertaş HM
  Sci Rep 2020, 10(1), 4080
  
• Impact of Key Nicotinic AChR Subunits on Post-Stroke Pneumococcal Pneumonia.
  Jagdmann S, Dames C, Berchtold D, Winek K, Weitbrecht L, Meisel A, Meisel C
  Vaccines (Basel) 2020, 8(2), 253
  
• Splicing factor YBX1 mediates persistence of JAK2-mutated neoplasms.
  Jayavelu AK, Schnöder TM, Perner F, Herzog C, Meiler A, Krishnamoorthy G, Huber N, Mohr J, Edelmann-Stephan B, Austin R, Brandt S, Palandri F, Schröder N, Isermann B, Edlich F, Sinha AU, Ungelenk M, Hübner CA, Zeiser R, Rahmig S, Waskow C, Coldham I, Ernst T, Hochhaus A, Jilg S, Jost PJ, Mullally A, Bullinger L, Mertens PR, Lane SW, Mann M, Heidel FH
  Nature 2020, 588(7836), 157-63
  
• Local and transient inhibition of p21 expression ameliorates age-related delayed wound healing.
  Jiang D, de Vries JC, Muschhammer J, Schatz S, Ye H, Hein T, Fidan M, Romanov VS, Rinkevich Y, Scharffetter-Kochanek K
  Wound Repair Regen 2020, 28(1), 49-60
  
• HIV-1 Lethality and Loss of Env Protein Expression Induced by Single Synonymous Substitutions in the Virus Genome Intronic-Splicing Silencer.
  Jordan-Paiz A, Nevot M, Lamkiewicz K, Lataretu M, Franco S, Marz M, Martinez MA
  J Virol 2020, 94(21), e01108-20
  
• SIRT7: an influence factor in healthy aging and the development of age-dependent myeloid stem-cell disorders.
  Kaiser A, Schmidt M, Huber O, Frietsch JJ, Scholl S, Heidel FH, Hochhaus A, Müller JP, Ernst T
  Leukemia 2020, 34(8), 2206-16
  
• Pyruvate kinase variant of fission yeast tunes carbon metabolism, cell regulation, growth and stress resistance.
  Kamrad S, Grossbach J, Rodríguez-López M, Mülleder M, Townsend S, Cappelletti V, Stojanovski G, Correia-Melo C, Picotti P, Beyer A, Ralser M, Bähler J
  Mol Syst Biol 2020, 16(4), e9270
  
• Pyphe, a python toolbox for assessing microbial growth and cell viability in high-throughput colony screens.
  Kamrad S, Rodríguez-López M, Cotobal C, Correia-Melo C, Ralser M, Bähler J
  Elife 2020, 9, e55160
  
• Cohesin controls intestinal stem cell identity by maintaining association of Escargot with target promoters.
  Khaminets A, Ronnen-Oron T, Baldauf M, Meier E, Jasper H
  Elife 2020, 9, e48160
  
• Bashing irreproducibility with shournal
  Kirchner T, Riege K, Hoffmann S
  bioRxiv 2020, https://doi.org/10.1101/2020.08.
  
• 1 H, 13 C, and 15 N backbone assignments of the C-terminal region of the human retinoic acid-induced protein 2.
  Lang A, Goradia N, Wikman H, Werner S, Wilmanns M, Ohlenschläger O
  Biomol NMR Assign 2020, 14(2), 271-5
  
• Detecting Ordinal Subcascades
  Lausser* L, Schäfer* LM, Kühlwein SD, Kestler AMR, Kestler HA
  Neural Process Lett 2020, 52, 2583–2605 * equal contribution
  
• Chained correlations for feature selection
  Lausser* L, Szekely* R, Kestler HA
  ADV DATA ANAL CLASSI 2020, 14, 871–884 * equal contribution
  
• Patterns of somatic structural variation in human cancer genomes.
  Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M, PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Campbell PJ, PCAWG Consortium
  Nature 2020, 578(7793), 112-21
  
• The GID ubiquitin ligase complex is a regulator of AMPK activity and organismal lifespan.
  Liu H, Ding J, Köhnlein K, Urban N, Ori A, Villavicencio-Lorini P, Walentek P, Klotz LO, Hollemann T, Pfirrmann T
  Autophagy 2020, 16(9), 1618-34
  
• Asymmetrical canina meiosis is accompanied by the expansion of a pericentromeric satellite in non-recombining univalent chromosomes.
  Lunerová J, Herklotz V, Laudien M, Vozárová R, Groth M, Kovařík A, Ritz CM
  Ann Bot (Lond) 2020, 125(7), 1025-38
  
• Virus Bioinformatics
  Marz M, Ibrahim B, Hufsky F, Robertson DL (eds)
  2020, pages 330. MDPI - Multidiscipli
  
• ARDD 2020: from aging mechanisms to interventions.
  Mkrtchyan GV, Abdelmohsen K, Andreux P, Bagdonaite I, Barzilai N, Brunak S, Cabreiro F, de Cabo R, Campisi J, Cuervo AM, Demaria M, Ewald CY, Fang EF, Faragher R, Ferrucci L, Freund A, Silva-García CG, Georgievskaya A, Gladyshev VN, Glass DJ, Gorbunova V, de Grey A, He WW, Hoeijmakers J, Hoffmann E, Horvath S, Houtkooper RH, Jensen MK, Jensen MB, Kane A, Kassem M, de Keizer P, Kennedy B, Karsenty G, Lamming DW, Lee KF, MacAulay N, Mamoshina P, Mellon J, Molenaars M, Moskalev A, Mund A, Niedernhofer L, Osborne B, Pak HH, Parkhitko A, Raimundo N, Rando TA, Rasmussen LJ, Reis C, Riedel CG, Franco-Romero A, Schumacher B, Sinclair DA, Suh Y, Taub PR, Toiber D, Treebak JT, Valenzano DR, Verdin E, Vijg J, Young S, Zhang L, Bakula D, Zhavoronkov A, Scheibye-Knudsen M
  Aging (Albany NY) 2020, 12(24), 24484-503
  
• Ontogenetic Pattern Changes of Nucleobindin-2/Nesfatin-1 in the Brain and Intestinal Bulb of the Short Lived African Turquoise Killifish.
  Montesano* A, Felice* ED, Leggieri A, Palladino A, Lucini C, Scocco P, Girolamo Pd, Baumgart** M, D'Angelo** L
  J Clin Med 2020, 9(1), 103 * equal contribution, ** co-corresponding authors
  
• Peripheral Cytokine Levels Differ by HPV Status and Change Treatment-Dependently in Patients with Head and Neck Squamous Cell Carcinoma.
  Mytilineos D, Ezić J, von Witzleben A, Mytilineos J, Lotfi R, Fürst D, Tsamadou C, Theodoraki MN, Oster A, Völkel G, Kestler HA, Brunner C, Schuler PJ, Doescher J, Hoffmann TK, Laban S
  Int J Mol Sci 2020, 21(17), 5990
  
• Growth inhibitory role of the p53 activator SCH 529074 in non‑small cell lung cancer cells expressing mutant p53.
  Nenkov M, Ma Y, Haase D, Zhou Z, Li Y, Petersen I, Lu G, Chen Y
  Oncol Rep 2020, 43(2), 2073-82
  
• Genomic basis for RNA alterations in cancer.
  PCAWG Transcriptome Core Group, Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley KA, Hou Y, Huska MR, Kilpinen H, Korbel JO, Marin MG, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu CS, Siebert R, Stark SG, Su H, Tan P, Waszak SM, Yung C, Zhu S, Awadalla P, Creighton CJ, Meyerson M, Ouellette BFF, Wu K, Yang H, PCAWG Transcriptome Working Group, Brazma A, Brooks AN, Göke J, Rätsch G, Schwarz RF, Stegle O, Zhang Z, PCAWG Consortium
  Nature 2020, 578(7793), 129-36
  
• Characterization of Amyloid Structures in Aging C. Elegans Using Fluorescence Lifetime Imaging.
  Pigazzini ML, Gallrein C, Iburg M, Kaminski Schierle G, Kirstein J
  J Vis Exp 2020
  
• In Vivo Quantification of Protein Turnover in Aging C. Elegans using Photoconvertible Dendra2.
  Pigazzini ML, Kirstein J
  J Vis Exp 2020
  
• Vulnerability of progeroid smooth muscle cells to biomechanical forces is mediated by MMP13.
  Pitrez PR, Estronca L, Monteiro LM, Colell G, Vazão H, Santinha D, Harhouri K, Thornton D, Navarro C, Egesipe AL, Carvalho T, Dos Santos RL, Lévy N, Smith JC, de Magalhães JP, Ori A, Bernardo A, De Sandre-Giovannoli A, Nissan X, Rosell A, Ferreira L
  Nat Commun 2020, 11(1), 4110
  
• The turquoise killifish: a genetically tractable model for the study of aging.
  Poeschla M, Valenzano DR
  J Exp Biol 2020, 223(Pt Suppl 1)
  
• Microbiota-host interactions shape ageing dynamics.
  Popkes M, Valenzano DR
  Philos Trans R Soc Lond B Biol Sci 2020, 375(1808), 20190596
  
• Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
  Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzós A, Herrmann C, Maruvka YE, Shen C, Amin SB, Bandopadhayay P, Bertl J, Boroevich KA, Busanovich J, Carlevaro-Fita J, Chakravarty D, Chan CWY, Craft D, Dhingra P, Diamanti K, Fonseca NA, Gonzalez-Perez A, Guo Q, Hamilton MP, Haradhvala NJ, Hong C, Isaev K, Johnson TA, Juul M, Kahles A, Kahraman A, Kim Y, Komorowski J, Kumar K, Kumar S, Lee D, Lehmann KV, Li Y, Liu EM, Lochovsky L, Park K, Pich O, Roberts ND, Saksena G, Schumacher SE, Sidiropoulos N, Sieverling L, Sinnott-Armstrong N, Stewart C, Tamborero D, Tubio JMC, Umer HM, Uusküla-Reimand L, Wadelius C, Wadi L, Yao X, Zhang CZ, Zhang J, Haber JE, Hobolth A, Imielinski M, Kellis M, Lawrence MS, von Mering C, Nakagawa H, Raphael BJ, Rubin MA, Sander C, Stein LD, Stuart JM, Tsunoda T, Wheeler DA, Johnson R, Reimand J, Gerstein M, Khurana E, Campbell PJ, López-Bigas N, PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G, PCAWG Consortium
  Nature 2020, 578(7793), 102-11
  
• Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition.
  Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, Dentro SC, Blanco MG, Contino G, Ardeljan D, Tojo M, Roberts ND, Zumalave S, Edwards PA, Weischenfeldt J, Puiggròs M, Chong Z, Chen K, Lee EA, Wala JA, Raine KM, Butler A, Waszak SM, Navarro FCP, Schumacher SE, Monlong J, Maura F, Bolli N, Bourque G, Gerstein M, Park PJ, Wedge DC, Beroukhim R, Torrents D, Korbel JO, Martincorena I, Fitzgerald RC, Van Loo P, Kazazian HH, Burns KH, PCAWG Structural Variation Working Group, Campbell PJ, Tubio JMC, PCAWG Consortium
  Nat Genet 2020, 52(3), 306-19
  
• A virtual "Werkstatt" for digitization in the sciences
  Samuel S, Shadaydeh M, Böcker S, Brügmann B, Bucher SF, Deckert V, Denzler J, Dittrich P, Eggeling F, Güllmar D, Guntinas-Lichius O, König-Ries B, Löffler F, Maicher L, Marz M, Migliavacca M, Reichenbach JR, Reichstein M, Römermann C, Wittig A
  Res Ideas Outcomes 2020, 6, e54106
  
• Reducing INS-IGF1 signaling protects against non-cell autonomous vesicle rupture caused by SNCA spreading.
  Sandhof CA, Hoppe SO, Druffel-Augustin S, Gallrein C, Kirstein J, Voisine C, Nussbaum-Krammer C
  Autophagy 2020, 16(5), 878
  
• Measuring Mental Effort for Creating Mobile Data Collection Applications.
  Schobel J, Probst T, Reichert M, Schlee W, Schickler M, Kestler HA, Pryss R
  Int J Environ Res Public Health 2020, 17(5), 1649
  
• Stem Cell Aging: The Upcoming Era of Proteins and Metabolites.
  Schüler* SC, Gebert* N, Ori A
  Mech Ageing Dev 2020, 190, 111288 * equal contribution
  
• The stress-responsive gene GDPGP1/mcp-1 regulates neuronal glycogen metabolism and survival.
  Schulz A, Sekine Y, Oyeyemi MJ, Abrams AJ, Basavaraju M, Han SM, Groth M, Morrison H, Strittmatter SM, Hammarlund M
  J Cell Biol 2020, 219(2), doi: 10.1083/jcb.201807127
  
• Two-Stream Attention Network for Pain Recognition from Video Sequences.
  Thiam P, Kestler* HA, Schwenker* F
  Sensors (Basel) 2020, 20(3), 839 * equal contribution
  
• Der Hippo-Signalweg in der Regeneration und im Krebs
  Tollot M, Cindric Vranesic A, von Eyss B
  BIOspektrum 2020, 26, 154–157
  
• Apoptosis of hematopoietic progenitor-derived adipose tissue-resident macrophages contributes to insulin resistance after myocardial infarction.
  Vasamsetti SB, Coppin E, Zhang X, Florentin J, Koul S, Götberg M, Clugston AS, Thoma F, Sembrat J, Bullock GC, Kostka D, St Croix CM, Chattopadhyay A, Rojas M, Mulukutla SR, Dutta P
  Sci Transl Med 2020, 12(553), eaaw0638
  
• Intra-species differences in population size shape life history and genome evolution.
  Willemsen D, Cui R, Reichard M, Valenzano DR
  Elife 2020, 9, e55794
  
• Transfer RNA fragments replace microRNA regulators of the cholinergic poststroke immune blockade.
  Winek* K, Lobentanzer* S, Nadorp B, Dubnov S, Dames C, Jagdmann S, Moshitzky G, Hotter B, Meisel C, Greenberg DS, Shifman S, Klein J, Shenhar-Tsarfaty S, Meisel A, Soreq H
  Proc Natl Acad Sci U S A 2020, 117(51), 32606-16 * equal contribution
  
• Identification of Ppar γ -modulated miRNA hubs that target the fibrotic tumor microenvironment.
  Winkler I, Bitter C, Winkler S, Weichenhan D, Thavamani A, Hengstler JG, Borkham-Kamphorst E, Kohlbacher O, Plass C, Geffers R, Weiskirchen R, Nordheim A
  Proc Natl Acad Sci U S A 2020, 117(1), 454-63
  
• Butler enables rapid cloud-based analysis of thousands of human genomes.
  Yakneen S, Waszak SM, PCAWG Technical Working Group, Gertz M, Korbel JO, PCAWG Consortium
  Nat Biotechnol 2020, 38(3), 288–292
  
• Comprehensive molecular characterization of mitochondrial genomes in human cancers.
  Yuan Y, Ju YS, Kim Y, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim HL, Nakagawa H, Park K, Campbell PJ, Liang H, PCAWG Consortium
  Nat Genet 2020, 52(3), 342-52
  
• The landscape of viral associations in human cancers.
  Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H, PCAWG Pathogens, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Consortium
  Nat Genet 2020, 52(3), 320-30
  
• Displacement of the Gent/1999 human-like swine H1N2 influenza A virus lineage by novel H1N2 reassortants in Germany.
  Zell R, Groth M, Krumbholz A, Lange J, Philipps A, Dürrwald R
  Arch Virol 2020, 165(1), 55-67
  

Publications 2019:

• Loss of genomic integrity induced by lysosphingolipid imbalance drives ageing in the heart.
  Ahuja G, Bartsch D, Yao W, Geissen S, Frank S, Aguirre A, Russ N, Messling JE, Dodzian J, Lagerborg KA, Vargas NE, Muck JS, Brodesser S, Baldus S, Sachinidis A, Hescheler J, Dieterich C, Trifunovic A, Papantonis A, Petrascheck M, Klinke A, Jain M, Valenzano** DR, Kurian** L
  EMBO Rep 2019, 20(4), e47407 ** co-corresponding authors
  
• Microbiome evolution during host aging.
  Aleman FDD, Valenzano DR
  PLoS Pathog 2019, 15(7), e1007727
  
• Length-independent telomere damage drives post-mitotic cardiomyocyte senescence.
  Anderson R, Lagnado A, Maggiorani D, Walaszczyk A, Dookun E, Chapman J, Birch J, Salmonowicz H, Ogrodnik M, Jurk D, Proctor C, Correia-Melo C, Victorelli S, Fielder E, Berlinguer-Palmini R, Owens A, Greaves LC, Kolsky KL, Parini A, Douin-Echinard V, LeBrasseur NK, Arthur HM, Tual-Chalot S, Schafer MJ, Roos CM, Miller JD, Robertson N, Mann J, Adams PD, Tchkonia T, Kirkland JL, Mialet-Perez J, Richardson GD, Passos JF
  EMBO J 2019, 38(5), e100492
  
• Mitohormetic effects of rotenone drastically depend on age.
  Baumgart* M, Ugolini* M, Groth M, Platzer M, Cellerino A
  bioRxiv 2019, https://doi.org/10.1101/528547 * equal contribution
  
• BRCA1 mislocalization leads to aberrant DNA damage response in heterozygous ABRAXAS1 mutation carrier cells.
  Bose M, Sachsenweger J, Laurila N, Parplys AC, Willmann J, Jungwirth J, Groth M, Rapakko K, Nieminen P, Friedl TWP, Heiserich L, Meyer F, Tuppurainen H, Peltoketo H, Nevanlinna H, Pylkäs K, Borgmann K, Wiesmüller L, Winqvist** R, Pospiech** H
  Hum Mol Genet 2019, 28(24), 4148-60 ** co-corresponding authors
  
• Self-Establishing Communities: A Yeast Model to Study the Physiological Impact of Metabolic Cooperation in Eukaryotic Cells.
  Campbell K, Correia-Melo C, Ralser M
  Methods Mol Biol 2019, 2049, 263-82
  
• Resting cells rely on the DNA helicase component MCM2 to build cilia.
  Casar Tena T, Maerz LD, Szafranski K, Groth M, Blätte TJ, Donow C, Matysik S, Walther P, Jeggo PA, Burkhalter MD, Philipp M
  Nucleic Acids Res 2019, 47(1), 134-51
  
• Re-thinking the Etiological Framework of Neurodegeneration.
  Castillo X, Castro-Obregón S, Gutiérrez-Becker B, Gutiérrez-Ospina G, Karalis N, Khalil AA, Lopez-Noguerola JS, Rodríguez LL, Martínez-Martínez E, Perez-Cruz C, Pérez-Velázquez J, Piña AL, Rubio K, García HPS, Syeda T, Vanoye-Carlo A, Villringer A, Winek K, Zille M
  FRONT NEUROSCI-SWITZ 2019, 13, 728
  
• Early-life Pb exposure as a potential risk factor for Alzheimer's disease: are there hazards for the Mexican population?
  Chin-Chan M, Cobos-Puc L, Alvarado-Cruz I, Bayar M, Ermolaeva M
  J Biol Inorg Chem 2019, 24(8), 1285-303
  
• Exposure of a cryptic Hsp70 binding site determines the cytotoxicity of the ALS-associated SOD1-mutant A4V.
  Claes F, Rudyak S, Laird AS, Louros N, Beerten J, Debulpaep M, Michiels E, van der Kant R, Van Durme J, De Baets G, Houben B, Ramakers M, Yuan K, Gwee SSL, Hernandez S, Broersen K, Oliveberg M, Moahamed B, Kirstein J, Robberecht W, Rousseau F, Schymkowitz J
  Protein Eng Des Sel 2019, 32(10), 443
  
• Rapamycin improves healthspan but not inflammaging in nfκb1-/- mice.
  Correia-Melo* C, Birch* J, Fielder E, Rahmatika D, Taylor J, Chapman J, Lagnado A, Carroll BM, Miwa S, Richardson G, Jurk D, Oakley F, Mann J, Mann DA, Korolchuk VI, Passos JF
  Aging Cell 2019, 18(1), e12882 * equal contribution
  
• Relaxed Selection Limits Lifespan by Increasing Mutation Load.
  Cui R, Medeiros T, Willemsen D, Iasi LNM, Collier GE, Graef M, Reichard M, Valenzano DR
  Cell 2019, 178(2), 385-399.e20
  
• Construction of cloning-friendly mini-genes for mammalian expression of full-length human NF1 isoforms.
  Cui Y, Morrison H
  Hum Mutat 2019, 40(2), 187-92
  
• Comment on 'Naked mole-rat mortality rates defy Gompertzian laws by not increasing with age'.
  Dammann* P, Scherag* A, Zak N, Szafranski K, Holtze S, Begall S, Burda H, Kestler HA, Hildebrandt T, Platzer M
  Elife 2019, 8 * corresponding author
  
• Cell cycle dynamics during diapause entry and exit in an annual killifish revealed by FUCCI technology.
  Dolfi L, Ripa R, Antebi A, Valenzano DR, Cellerino A
  Evodevo 2019, 10, 29
  
• Identifying Potential Ageing-Modulating Drugs In Silico.
  Dönertaş* HM, Fuentealba* M, Partridge L, Thornton JM
  Trends Endocrinol Metab 2019, 30(2), 118 * equal contribution
  
• Karyopherin α2-dependent import of E2F1 and TFDP1 maintains protumorigenic stathmin expression in liver cancer.
  Drucker E, Holzer K, Pusch S, Winkler J, Calvisi DF, Eiteneuer E, Herpel E, Goeppert B, Roessler S, Ori A, Schirmacher P, Breuhahn K, Singer S
  Cell Commun Signal 2019, 17(1), 159
  
• A CRISPR Activation Screen Identifies Genes That Protect against Zika Virus Infection.
  Dukhovny A, Lamkiewicz K, Chen Q, Fricke M, Jabrane-Ferrat N, Marz M, Jung JU, Sklan EH
  J Virol 2019, 93(16), e00211-19
  
• Crosstalk Between Chaperone-Mediated Protein Disaggregation and Proteolytic Pathways in Aging and Disease.
  Feleciano DR, Juenemann K, Iburg M, Brás IC, Holmberg CI, Kirstein J
  Front Aging Neurosci 2019, 11, 9
  
• Global importance of RNA secondary structures in protein coding sequences.
  Fricke M, Gerst R, Ibrahim B, Niepmann M, Marz M
  Bioinformatics 2019, 35(4), 579-83
  
• Using the drug-protein interactome to identify anti-ageing compounds for humans.
  Fuentealba M, Dönertaş HM, Williams R, Labbadia J, Thornton JM, Partridge L
  PLoS Comput Biol 2019, 15(1), e1006639
  
• Cellular Gene Expression during Hepatitis C Virus Replication as Revealed by Ribosome Profiling.
  Gerresheim GK, Bathke J, Michel AM, Andreev DE, Shalamova LA, Rossbach O, Hu P, Glebe D, Fricke M, Marz M, Goesmann A, Kiniry SJ, Baranov PV, Shatsky IN, Niepmann M
  Int J Mol Sci 2019, 20(6), 1321
  
• Profiling of gallbladder carcinoma reveals distinct miRNA profiles and activation of STAT1 by the tumor suppressive miRNA-145-5p.
  Goeppert B, Truckenmueller F, Ori A, Fritz V, Albrecht T, Fraas A, Scherer D, Silos RG, Sticht C, Gretz N, Mehrabi A, Bewerunge-Hudler M, Pusch S, Bermejo JL, Dietrich P, Schirmacher P, Renner M, Roessler S
  Sci Rep 2019, 9(1), 4796
  
• Quantitative Proteome Landscape of the NCI-60 Cancer Cell Lines.
  Guo T, Luna A, Rajapakse VN, Koh CC, Wu Z, Liu W, Sun Y, Gao H, Menden MP, Xu C, Calzone L, Martignetti L, Auwerx C, Buljan M, Banaei-Esfahani A, Ori A, Iskar M, Gillet L, Bi R, Zhang J, Zhang H, Yu C, Zhong Q, Varma S, Schmitt U, Qiu P, Zhang Q, Zhu Y, Wild PJ, Garnett MJ, Bork P, Beck M, Liu K, Saez-Rodriguez J, Elloumi F, Reinhold WC, Sander C, Pommier Y, Aebersold R
  iScience 2019, 21, 664-80
  
• Pharmacological reactivation of MYC-dependent apoptosis induces susceptibility to anti-PD-1 immunotherapy.
  Haikala HM, Anttila JM, Marques E, Raatikainen T, Ilander M, Hakanen H, Ala-Hongisto H, Savelius M, Balboa D, Von Eyss B, Eskelinen V, Munne P, Nieminen AI, Otonkoski T, Schüler J, Laajala TD, Aittokallio T, Sihto H, Mattson J, Heikkilä P, Leidenius M, Joensuu H, Mustjoki S, Kovanen P, Eilers M, Leverson JD, Klefström J
  Nat Commun 2019, 10(1), 620
  
• Publisher Correction: Pharmacological reactivation of MYC-dependent apoptosis induces susceptibility to anti-PD-1 immunotherapy.
  Haikala HM, Anttila JM, Marques E, Raatikainen T, Ilander M, Hakanen H, Ala-Hongisto H, Savelius M, Balboa D, Von Eyss B, Eskelinen V, Munne P, Nieminen AI, Otonkoski T, Schüler J, Laajala TD, Aittokallio T, Sihto H, Mattson J, Heikkilä P, Leidenius M, Joensuu H, Mustjoki S, Kovanen P, Eilers M, Leverson JD, Klefström J
  Nat Commun 2019, 10(1), 932
  
• Nucleoporin Nup155 is part of the p53 network in liver cancer.
  Holzer K, Ori A, Cooke A, Dauch D, Drucker E, Riemenschneider P, Andres-Pons A, DiGuilio AL, Mackmull MT, Baßler J, Roessler S, Breuhahn K, Zender L, Glavy JS, Dombrowski F, Hurt E, Schirmacher P, Beck M, Singer S
  Nat Commun 2019, 10(1), 2147
  
• De novo transcriptome assembly: A comprehensive cross-species comparison of short-read RNA-Seq assemblers.
  Hölzer M, Marz M
  Gigascience 2019, 8(5), giz039
  
• Evaluation of Sequencing Library Preparation Protocols for Viral Metagenomic Analysis from Pristine Aquifer Groundwaters.
  Kallies R, Hölzer M, Brizola Toscan R, Nunes da Rocha U, Anders J, Marz M, Chatzinotas A
  Viruses 2019, 11(6), 484
  
• Function, evolution, and structure of J-domain proteins.
  Kampinga HH, Andreasson C, Barducci A, Cheetham ME, Cyr D, Emanuelsson C, Genevaux P, Gestwicki JE, Goloubinoff P, Huerta-Cepas J, Kirstein J, Liberek K, Mayer MP, Nagata K, Nillegoda NB, Pulido P, Ramos C, De Los Rios P, Rospert S, Rosenzweig R, Sahi C, Taipale M, Tomiczek B, Ushioda R, Young JC, Zimmermann R, Zylicz A, Zylicz M, Craig EA, Marszalek J
  Cell Stress Chaperones 2019, 24(1), 7
  
• The widespread increase in inter-individual variability of gene expression in the human brain with age.
  Kedlian* VR, Donertas* HM, Thornton JM
  Aging (Albany NY) 2019, 11(8), 2253 * equal contribution
  
• Inverse resource allocation between vision and olfaction across the genus Drosophila.
  Keesey IW, Grabe V, Gruber L, Koerte S, Obiero GF, Bolton G, Khallaf MA, Kunert G, Lavista-Llanos S, Valenzano DR, Rybak J, Barrett BA, Knaden M, Hansson BS
  Nat Commun 2019, 10(1), 1162
  
• Transduction and transfection of difficult-to-transfect cells: Systematic attempts for the transfection of protozoa Leishmania.
  Keller AA, Scheiding B, Breitling R, Licht A, Hemmerich P, Lorkowski S, Reissmann S
  J Cell Biochem 2019, 120(1), 14-27
  
• ATM phosphorylation of the actin-binding protein drebrin controls oxidation stress-resistance in mammalian neurons and C. elegans.
  Kreis P, Gallrein C, Rojas-Puente E, Mack TGA, Kroon C, Dinkel V, Willmes C, Murk K, Tom-Dieck S, Schuman EM, Kirstein** J, Eickholt** BJ
  Nat Commun 2019, 10(1), 486 ** co-corresponding authors
  
• RNAi-Screening in Knochenbildenden Zellen.
  Kroll T, Ahmad M, Ploubidou A, Tuckermann J
  BIOspektrum 2019, 25, 523–526
  
• Macaca arctoides gammaherpesvirus 1 (strain herpesvirus Macaca arctoides): virus sequence, phylogeny and characterisation of virus-transformed macaque and rabbit cell lines.
  Krumbholz A, Roempke J, Liehr T, Groth M, Meerbach A, Schacke M, Maschkowitz G, Fickenscher H, Klapper W, Sauerbrei A, Wutzler P, Zell R
  Med Microbiol Immunol 2019, 208(1), 109-29
  
• Identification and Expression of Neurotrophin-6 in the Brain of Nothobranchius furzeri: One More Piece in Neurotrophin Research.
  Leggieri A, Attanasio C, Palladino A, Cellerino A, Lucini C, Paolucci M, Terzibasi Tozzini E, de Girolamo P, D'Angelo L
  J Clin Med 2019, 8(5), 595
  
• Comparison of protein quantification in a complex background by DIA and TMT workflows with fixed instrument time.
  Muntel* J, Kirkpatrick* J, Bruderer R, Huang T, Vitek O, Ori** A, Reiter** L
  J Proteome Res 2019, 18(3), 1340-51 * equal contribution, ** co-senior authors
  
• Lysine harvesting is an antioxidant strategy and triggers underground polyamine metabolism.
  Olin-Sandoval V, Yu JSL, Miller-Fleming L, Alam MT, Kamrad S, Correia-Melo C, Haas R, Segal J, Peña Navarro DA, Herrera-Dominguez L, Méndez-Lucio O, Vowinckel J, Mülleder M, Ralser M
  Nature 2019, 572(7768), 249-53
  
• Author Correction: Metastatic-niche labelling reveals parenchymal cells with stem features.
  Ombrato L, Nolan E, Kurelac I, Mavousian A, Bridgeman VL, Heinze I, Chakravarty P, Horswell S, Gonzalez-Gualda E, Matacchione G, Weston A, Kirkpatrick J, Husain E, Speirs V, Collinson L, Ori A, Lee JH, Malanchi I
  Nature 2019, 575(7784), E8
  
• Metastatic-niche labelling reveals parenchymal cells with stem features.
  Ombrato L, Nolan E, Kurelac I, Mavousian A, Bridgeman VL, Heinze I, Chakravarty P, Horswell S, Gonzalez-Gualda E, Matacchione G, Weston A, Kirkpatrick J, Husain E, Speirs V, Collinson L, Ori A, Lee JH, Malanchi I
  Nature 2019, 572(7771), 603-8
  
• The Myb-MuvB Complex Is Required for YAP-Dependent Transcription of Mitotic Genes.
  Pattschull G, Walz S, Gründl M, Schwab M, Rühl E, Baluapuri A, Cindric-Vranesic A, Kneitz S, Wolf E, Ade CP, Rosenwald A, von Eyss B, Gaubatz S
  Cell Rep 2019, 27(12), 3533-3546.e7
  
• Structure and Hierarchy of Influenza Virus Models Revealed by Reaction Network Analysis.
  Peter S, Hölzer M, Lamkiewicz K, di Fenizio PS, Al Hwaeer H, Marz M, Schuster S, Dittrich P, Ibrahim B
  Viruses 2019, 11(5), 449
  
• Disentangling Genetic and Environmental Effects on the Proteotypes of Individuals.
  Romanov N, Kuhn M, Aebersold R, Ori A, Beck M, Bork P
  Cell 2019, 177(5), 1308-18
  
• RB, p130 and p107 differentially repress G1/S and G2/M genes after p53 activation.
  Schade AE, Fischer M, DeCaprio JA
  Nucleic Acids Res 2019, 47(21), 11197-208
  
• Global network of computational biology communities: ISCB's Regional Student Groups breaking barriers.
  Shome S, Parra RG, Fatima N, Monzon AM, Cuypers B, Moosa Y, Coimbra NDR, Assis J, Giner-Delgado C, Dönertaş HM, Cuesta-Astroz Y, Saarunya G, Allali I, Gupta S, Srivastava A, Kalsan M, Valdivia C, J Olguin-Orellana G, Papadimitriou S, Parisi D, Kristensen NP, Rib L, Guebila MB, Bauer E, Zaffaroni G, Bekkar A, Ashano E, Paladin L, Necci M, Moreyra NN, Rydén M, Villalobos-Solís J, Papadopoulos N, Rafael C, Karakulak T, Kaya Y, Gladbach Y, Dhanda SK, Šoštarić N, Alex A, DeBlasio D, Rahman F
  F1000Res 2019, 8
  
• Exploring Deep Physiological Models for Nociceptive Pain Recognition.
  Thiam P, Bellmann P, Kestler HA, Schwenker F
  Sensors (Basel) 2019, 19(20), 4503
  
• Molecular footprint of Medawar's mutation accumulation process in mammalian aging.
  Turan ZG, Parvizi P, Dönertaş HM, Tung J, Khaitovich P, Somel M
  Aging Cell 2019, 18(4), e12965
  
• An encoding of genome content for machine learning.
  Viehweger A, Krautwurst S, Parks DH, Koenig B, Marz M
  bioRxiv 2019, https://doi.org/10.1101/524280
  
• Direct RNA nanopore sequencing of full-length coronavirus genomes provides novel insights into structural variants and enables modification analysis.
  Viehweger* A, Krautwurst* S, Lamkiewicz K, Madhugiri R, Ziebuhr J, Hölzer M, Marz M
  Genome Res 2019, 29(9), 1545-54 * equal contribution
  

Publications 2018:

• Whither systems medicine?
  Apweiler R, Beissbarth T, Berthold MR, Blüthgen N, Burmeister Y, Dammann O, Deutsch A, Feuerhake F, Franke A, Hasenauer J, Hoffmann S, Höfer T, Jansen PL, Kaderali L, Klingmüller U, Koch I, Kohlbacher O, Kuepfer L, Lammert F, Maier D, Pfeifer N, Radde N, Rehm M, Roeder I, Saez-Rodriguez J, Sax U, Schmeck B, Schuppert A, Seilheimer B, Theis FJ, Vera J, Wolkenhauer O
  Exp Mol Med 2018, 50(3), e453
  
• Transcriptomic alterations during ageing reflect the shift from cancer to degenerative diseases in the elderly.
  Aramillo Irizar P, Schäuble S, Esser D, Groth M, Frahm C, Priebe S, Baumgart M, Hartmann N, Marthandan S, Menzel U, Müller J, Schmidt S, Ast V, Caliebe A, König R, Krawczak M, Ristow M, Schuster S, Cellerino A, Diekmann S, Englert C, Hemmerich P, Sühnel J, Guthke R, Witte OW, Platzer M, Ruppin E, Kaleta C
  Nat Commun 2018, 9(1), 327
  
• SETD1A protects HSCs from activation-induced functional decline in vivo.
  Arndt K, Kranz A, Fohgrub J, Jolly A, Bledau AS, Di Virgilio M, Lesche M, Dahl A, Höfer T, Stewart AF, Waskow C
  Blood 2018, 131(12), 1311-24
  
• mHTT Seeding Activity: A Marker of Disease Progression and Neurotoxicity in Models of Huntington's Disease.
  Ast A, Buntru A, Schindler F, Hasenkopf R, Schulz A, Brusendorf L, Klockmeier K, Grelle G, McMahon B, Niederlechner H, Jansen I, Diez L, Edel J, Boeddrich A, Franklin SA, Baldo B, Schnoegl S, Kunz S, Purfürst B, Gaertner A, Kampinga HH, Morton AJ, Petersén Å, Kirstein J, Bates GP, Wanker EE
  Mol Cell 2018, 71(5), 675
  
• Kidney regeneration in fish.
  Bates T, Naumann U, Hoppe B, Englert C
  Int J Dev Biol 2018, 62(6-7-8), 419-29
  
• Analysis of lncRNA-Protein Interactions by RNA-Protein Pull-Down Assays and RNA Immunoprecipitation (RIP).
  Bierhoff H
  Methods Mol Biol 2018, 1686, 241-50
  
• Spatial tissue proteomics quantifies inter- and intra-tumor heterogeneity in hepatocellular carcinoma.
  Buczak* K, Ori* A, Kirkpatrick JM, Holzer K, Dauch D, Roessler S, Endris V, Lasitschka F, Parca L, Schmidt A, Zender L, Schirmacher P, Krijgsveld J, Singer** S, Beck** M
  Mol Cell Proteomics 2018, 17(4), 810-25 * equal contribution, ** co-corresponding authors
  
• Computational pan-genomics: status, promises and challenges.
  Computational PGC, Marschall T, Marz M, Abeel T, Dijkstra L, Dutilh BE, Ghaffaari A, Kersey P, Kloosterman WP, Mäkinen V, Novak AM, Paten B, Porubsky D, Rivals E, Alkan C, Baaijens JA, De Bakker PIW, Boeva V, Bonnal RJP, Chiaromonte F, Chikhi R, Ciccarelli FD, Cijvat R, Datema E, Van Duijn CM, Eichler EE, Ernst C, Eskin E, Garrison E, El-Kebir M, Klau GW, Korbel JO, Lameijer EW, Langmead B, Martin M, Medvedev P, Mu JC, Neerincx P, Ouwens K, Peterlongo P, Pisanti N, Rahmann S, Raphael B, Reinert K, de Ridder D, de Ridder J, Schlesner M, Schulz-Trieglaff O, Sanders AD, Sheikhizadeh S, Shneider C, Smit S, Valenzuela D, Wang J, Wessels L, Zhang Y, Guryev V, Vandin F, Ye K, Schönhuth A
  Brief Bioinform 2018, 19(1), 118-35
  
• Sequential use of milk and bovine serum albumin for streptavidin-probed western blot.
  Cui Y, Ma L
  Biotechniques 2018, 65(3), 125-6
  
• X-ray Structures of the Proprotein Convertase Furin Bound with Substrate Analogue Inhibitors Reveal Substrate Specificity Determinants beyond the S4 Pocket.
  Dahms SO, Hardes K, Steinmetzer T, Than ME
  Biochemistry 2018, 57(6), 925-34
  
• Immunomodulatory treatment with systemic GM-CSF augments pulmonary immune responses and improves neurological outcome after experimental stroke.
  Dames C, Winek K, Beckers Y, Engel O, Meisel A, Meisel C
  J Neuroimmunol 2018, 321, 144-9
  
• Telomeric epigenetic response mediated by Gadd45a regulates stem cell aging and lifespan.
  Diao D, Wang H, Li T, Shi Z, Jin X, Sperka T, Zhu X, Zhang M, Yang F, Cong Y, Shen L, Zhan Q, Yan J, Song Z, Ju Z
  EMBO Rep 2018, 19(10), e45494
  
• A Protocol for Laboratory Housing of Turquoise Killifish (Nothobranchius furzeri).
  Dodzian J, Kean S, Seidel J, Valenzano DR
  J Vis Exp 2018
  
• Gene expression-based drug repurposing to target aging.
  Dönertaş HM, Fuentealba Valenzuela M, Partridge L, Thornton JM
  Aging Cell 2018, 17(5), e12819
  
• DIEGO: Detection of Differential Alternative Splicing using Aitchison's Geometry.
  Doose G, Bernhart SH, Wagener R, Hoffmann S
  Bioinformatics 2018, 34(6), 1066-8
  
• Cellular and epigenetic drivers of stem cell ageing.
  Ermolaeva** M, Neri** F, Ori** A, Rudolph** KL
  Nat Rev Mol Cell Biol 2018, 19(9), 594-610 ** co-corresponding authors
  
• On the S-layer of Thermus thermophilus and the assembling of its main protein SlpA.
  Farci D, Farci SF, Esposito F, Tramontano E, Kirkpatrick J, Piano D
  Biochim Biophys Acta 2018, 1860(8), 1554-62
  
• 2016 Children's Tumor Foundation conference on neurofibromatosis type 1, neurofibromatosis type 2, and schwannomatosis.
  Fisher MJ, Belzberg AJ, de Blank P, De Raedt T, Elefteriou F, Ferner RE, Giovannini M, Harris GJ, Kalamarides M, Karajannis MA, Kim A, Lázaro C, Le LQ, Li W, Listernick R, Martin S, Morrison H, Pasmant E, Ratner N, Schorry E, Ullrich NJ, Viskochil D, Weiss B, Widemann BC, Zhu Y, Bakker A, Serra E
  Am J Med Genet A 2018, 176(5), 1258-69
  
• Integrative analysis of differentially expressed genes and miRNAs predicts complex T3-mediated protective circuits in a rat model of cardiac ischemia reperfusion.
  Forini F, Nicolini G, Kusmic C, D'Aurizio R, Rizzo M, Baumgart M, Groth M, Doccini S, Iervasi G, Pitto L
  Sci Rep 2018, 8(1), 13870
  
• The eukaryotic linear motif resource - 2018 update.
  Gouw M, Michael S, Sámano-Sánchez H, Kumar M, Zeke A, Lang B, Bely B, Chemes LB, Davey NE, Deng Z, Diella F, Gürth CM, Huber AK, Kleinsorg S, Schlegel LS, Palopoli N, Roey KV, Altenberg B, Reményi A, Dinkel H, Gibson TJ
  Nucleic Acids Res 2018, 46(D1), D428-34
  
• Effects of allelic variations in the human Myxovirus resistance protein A on its antiviral activity.
  Graf L, Dick A, Sendker F, Barth E, Marz M, Daumke O, Kochs G
  J Biol Chem 2018, 293(9), 3056-72
  
• Molecular mechanisms of photoadaptation of photosystem I supercomplex of in an evolutionary cyanobacterial/algal intermediate.
  Haniewicz P, Abram M, Nosek L, Kirkpatrick J, El-Mohsnawy E, Janna Olmos JD, Kouril R, Kargul JM
  Plant Physiol 2018, 176(2), 1433-51
  
• Influence of Scribble polarity complex on hematopoiesis and leukemia - a matter of where, when and how.
  Heidel FH, Ellis S
  Oncotarget 2018, 9(78), 34642-3
  
• Managing myeloproliferative neoplasms evidence based on the ELN treatment recommendations 2018.
  Heidel FH, Gale RP, Hochhaus A
  Leukemia 2018, 32(5), 1055-6
  
• Conformational µ-conotoxin PIIIA isomers revisited: The impact of cysteine pairing on disulfide bond assignment and structure elucidation.
  Heimer P, Tietze AA, Bäuml CA, Resemann A, Mayer FJ, Suckau D, Ohlenschläger O, Tietze D, Imhof D
  Anal Chem 2018, 90(5), 3321-7
  
• Retinal S-opsin dominance in Ansell's mole-rats (Fukomys anselli) is a consequence of naturally low serum thyroxine.
  Henning Y, Mladěnková N, Burda H, Szafranski* K, Begall* S
  Sci Rep 2018, 8(1), 4337 * equal contribution
  
• The fate of ribosomal RNA genes in spontaneous polyploid dogrose hybrids (Rosa L. sect. Caninae (DC.) Ser.) exhibiting non-symmetrical meiosis.
  Herklotz V, Kovařík A, Lunerová J, Lippitsch S, Groth M, Ritz CM
  Plant J 2018, 94(1), 77-90
  
• sAPPβ and sAPPα increase structural complexity and E/I input ratio in primary hippocampal neurons and alter Ca2+ homeostasis and CREB1-signaling
  Hesse R, von Einem B, Wagner F, Bott P, Schwanzar D, Jackson RJ, Föhr KJ, Lausser L, Kroker KS, Proepper C, Walther P, Kestler HA, Spires-Jones TL, Boeckers T, Rosenbrock H, von Arnim CAF
  Exp Neurol 2018, 304, 1-13
  
• Multiple roots of fruiting body formation in Amoebozoa.
  Hillmann F, Forbes G, Novohradská S, Ferling I, Riege K, Groth M, Westermann M, Marz M, Spaller T, Winckler T, Schaap P, Glöckner G
  Genome Biol Evol 2018, 10(2), 591-606
  
• Multimodal Light Microscopy Approaches to Reveal Structural and Functional Properties of Promyelocytic Leukemia Nuclear Bodies.
  Hoischen C, Monajembashi S, Weisshart K, Hemmerich P
  Front Oncol 2018, 8, 125
  
• CENP-C/H/I/K/M/T/W/N/L and hMis12 but not CENP-S/X participate in complex formation in the nucleoplasm of living human interphase cells outside centromeres.
  Hoischen* C, Yavas* S, Wohland T, Diekmann S
  PLoS One 2018, 13(3), e0192572 * equal contribution
  
• The microenvironment of naked mole-rat burrows in East Africa
  Holtze S, Braude S, Lemma A, Koch R, Morhart M, Szafranski K, Platzer M, Alemayehu F, Goeritz F, Hildebrandt TB
  Afr J Ecol 2018, 56(2), 279-89
  
• Virologists-Heroes need weapons.
  Hufsky F, Ibrahim B, Beer M, Deng L, Mercier PL, McMahon DP, Palmarini M, Thiel V, Marz M
  PLoS Pathog 2018, 14(2), e1006771
  
• 3D Network exploration and visualisation for lifespan data.
  Hühne* R, Kessler* V, Fürstberger* A, Kühlwein S, Platzer M, Sühnel J, Lausser L, Kestler HA
  BMC Bioinformatics 2018, 19(1), 390 * equal contribution
  
• Bioinformatics Meets Virology: The European Virus Bioinformatics Center's Second Annual Meeting.
  Ibrahim B, Arkhipova K, Andeweg AC, Posada-Céspedes S, Enault F, Gruber A, Koonin EV, Kupczok A, Lemey P, McHardy AC, McMahon DP, Pickett BE, Robertson DL, Scheuermann RH, Zhernakova A, Zwart MP, Schönhuth A, Dutilh BE, Marz M
  Viruses 2018, 10(5, 256; https://doi.org/10.33
  
• Dynamic recruitment of ubiquitin to mutant huntingtin inclusion bodies.
  Juenemann K, Jansen AHP, van Riel L, Merkx R, Mulder MPC, An H, Statsyuk A, Kirstein J, Ovaa H, Reits EA
  Sci Rep 2018, 8(1), 1405
  
• Synthesis and biochemical evaluation of two novel N-hydroxyalkylated cyclosporin A analogs.
  Kahlert V, Prell E, Ohlenschläger O, Melesina J, Schumann M, Lücke C, Fischer G, Malešević M
  Org Biomol Chem 2018, 16(23), 4338-49
  
• Big data and precision medicine: challenges and strategies with healthcare data
  Kraus JM, Lausser L, Kuhn P, Jobst F, Bock M, Halanke C, Hummel M, Heuschmann P, Kestler HA
  Int J Data Sci Anal 2018
  
• Identification of biological mechanisms by semantic classifier systems.
  Lausser L, Schmid F, Siegle L, Hühne R, Buchholz M, Kestler HA
  bioRxiv 2018, https://doi.org/10.1101/335737
  
• The Influence of Multi-class Feature Selection on the Prediction of Diagnostic Phenotypes
  Lausser L, Szekely R, Schirra LR, Kestler HA
  Neural Process Lett 2018, 48(2), 863–880
  
• Deletion of Menin in craniofacial osteogenic cells in mice elicits development of mandibular ossifying fibroma.
  Lee S, Liu P, Teinturier R, Jakob J, Tschaffon M, Tasdogan A, Wittig R, Hoeller S, Baumhoer D, Frappart L, Vettorazzi S, Bertolino P, Zhang C, Tuckermann J
  Oncogene 2018, 37(5), 616-26
  
• Heat Shock Factor 1 Epigenetically Stimulates Glutaminase-1-Dependent mTOR Activation to Promote Colorectal Carcinogenesis.
  Li J, Song P, Jiang T, Dai D, Wang H, Sun J, Zhu L, Xu W, Feng L, Shin VY, Morrison H, Wang X, Jin H
  Mol Ther 2018, 26(7), 1828-39
  
• Wilms Tumor 1b defines a wound-specific sheath cell subpopulation associated with notochord repair.
  Lopez-Baez JC, Simpson DJ, LLeras Forero L, Zeng Z, Brunsdon H, Salzano A, Brombin A, Wyatt C, Rybski W, Huitema LFA, Dale RM, Kawakami K, Englert C, Chandra T, Schulte-Merker S, Hastie ND, Patton EE
  Elife 2018, 7, e30657
  
• Cystatin A suppresses tumor cell growth through inhibiting epithelial to mesenchymal transition in human lung cancer.
  Ma Y, Chen Y, Li Y, Grün K, Berndt A, Zhou Z, Petersen I
  Oncotarget 2018, 9(18), 14084-98
  
• Structural and functional conservation of cis-acting RNA elements in coronavirus 5'-terminal genome regions.
  Madhugiri R, Karl N, Petersen D, Lamkiewicz K, Fricke M, Wend U, Scheuer R, Marz M, Ziebuhr J
  Virology 2018, 517, 44-55
  
• Internal tandem duplication mutations in the tyrosine kinase domain of FLT3 display a higher oncogenic potential than the activation loop D835Y mutation.
  Marhäll A, Heidel F, Fischer T, Rönnstrand L
  Ann Hematol 2018, 97(5), 773-80
  
• The sirtuin 1/2 inhibitor tenovin-1 induces a nonlinear apoptosis-inducing factor-dependent cell death in a p53 null Ewing's sarcoma cell line.
  Marx C, Marx-Blümel L, Lindig N, Thierbach R, Hoelzer D, Becker S, Wittig S, Lehmann R, Slevogt H, Heinzel T, Wang ZQ, Beck JF, Sonnemann J
  Invest New Drugs 2018, 36(3), 396-406
  
• Reduced expression of C/EBPβ-LIP extends health- and lifespan in mice.
  Müller* C, Zidek* LM, Ackermann T, de Jong T, Liu P, Kliche V, Zaini MA, Kortman G, Harkema L, Verbeek DS, Tuckermann JP, von Maltzahn J, de Bruin A, Guryev V, Wang ZQ, Calkhoven CF
  Elife 2018, 7, e34985 * equal contribution
  
• Dispersion/reaggregation in early development of annual killifishes: Phylogenetic distribution and evolutionary significance of a unique feature.
  Naumann B, Englert C
  Dev Biol 2018, 442(1), 69-79
  
• Exploratory Investigation of Intestinal Function and Bacterial Translocation After Focal Cerebral Ischemia in the Mouse.
  Oyama* N, Winek* K, Bäcker-Koduah P, Zhang T, Dames C, Werich M, Kershaw O, Meisel C, Meisel A, Dirnagl U
  Front Neurol 2018, 9, 937 * equal contribution, * corresponding author
  
• Efficacy and safety of ruxolitinib in intermediate-1 IPSS risk myelofibrosis patients: Results from an independent study.
  Palandri F, Tiribelli M, Benevolo G, Tieghi A, Cavazzini F, Breccia M, Bergamaschi M, Sgherza N, Polverelli N, Crugnola M, Isidori A, Binotto G, Heidel FH, Buccisano F, Martino B, Latagliata R, Spinsanti M, Kallenberg L, Palumbo GA, Abruzzese E, Scaffidi L, Cuneo A, Cavo M, Vianelli N, Bonifacio M
  Hematol Oncol 2018, 36(1), 285-90
  
• Quantifying compartment-associated variations of protein abundance in proteomics data.
  Parca L, Beck M, Bork P, Ori A
  Mol Syst Biol 2018, 14(7), e8131
  
• Dysregulation of chemokine receptor expression and function in leukocytes from ALS patients.
  Perner C, Perner F, Stubendorff B, Förster M, Witte OW, Heidel FH, Prell T, Grosskreutz J
  J Neuroinflammation 2018, 15(1), 99
  
• The Pseudogenes of Barley.
  Prade VM, Gundlach H, Twardziok S, Chapman B, Tan C, Langridge P, Schulman AH, Stein N, Waugh R, Zhang G, Platzer M, Li C, Spannagl M, Mayer KFX
  Plant J 2018, 93(3), 502-14
  
• Oncogenic JAK2V617F causes PD-L1 expression, mediating immune escape in myeloproliferative neoplasms.
  Prestipino A, Emhardt AJ, Aumann K, O'Sullivan D, Gorantla SP, Duquesne S, Melchinger W, Braun L, Vuckovic S, Boerries M, Busch H, Halbach S, Pennisi S, Poggio T, Apostolova P, Veratti P, Hettich M, Niedermann G, Bartholomä M, Shoumariyeh K, Jutzi JS, Wehrle J, Dierks C, Becker H, Schmitt-Graeff A, Follo M, Pfeifer D, Rohr J, Fuchs S, Ehl S, Hartl FA, Minguet S, Miething C, Heidel FH, Kröger N, Triviai I, Brummer T, Finke J, Illert AL, Ruggiero E, Bonini C, Duyster J, Pahl HL, Lane SW, Hill GR, Blazar BR, von Bubnoff N, Pearce EL, Zeiser R
  SCI TRANSL MED 2018, 10(429)
  
• Conformational Plasticity in Broadly Neutralizing HIV-1 Antibodies Triggers Polyreactivity.
  Prigent J, Jarossay A, Planchais C, Eden C, Dufloo J, Kök A, Lorin V, Vratskikh O, Couderc T, Bruel T, Schwartz O, Seaman MS, Ohlenschläger** O, Dimitrov** JD, Mouquet** H
  Cell Rep 2018, 23(9), 2568-81 ** co-corresponding authors
  
• RBFOX2 and alternative splicing in B-cell lymphoma.
  Quentmeier H, Pommerenke C, Bernhart SH, Dirks WG, Hauer V, Hoffmann S, Nagel S, Siebert R, Uphoff CC, Zaborski M, Drexler HG, ICGC MMML-Seq Consortium
  Blood Cancer J 2018, 8(8), 77
  
• Impairing L-Threonine Catabolism Promotes Healthspan through Methylglyoxal-Mediated Proteohormesis.
  Ravichandran M, Priebe S, Grigolon G, Rozanov L, Groth M, Laube B, Guthke R, Platzer M, Zarse K, Ristow M
  Cell Metab 2018, 27(4), 914-25
  
• Haplotypes composed of minor frequency single nucleotide polymorphism of tnf gene protect from progression into sepsis: A study using the new sepsis classification.
  Retsas T, Huse K, Lazaridis LD, Karampela N, Bauer M, Platzer M, Kolonia V, Papageorgiou E, Giamarellos-Bourboulis EJ, Dimopoulos G
  Int J Infect Dis 2018, 67, 102-6
  
• Neuropathies in the setting of Neurofibromatosis tumor syndromes: Complexities and opportunities.
  Schulz A, Grafe P, Hagel C, Bäumer P, Morrison H, Mautner VF, Farschtschi S
  Exp Neurol 2018, 299(Pt B), 334-44
  
• Complete suppression of Htt fibrilization and disaggregation of Htt fibrils by a trimeric chaperone complex.
  Scior A, Buntru A, Arnsburg K, Ast A, Iburg M, Juenemann K, Pigazzini ML, Mlody B, Puchkov D, Priller J, Wanker EE, Prigione A, Kirstein J
  EMBO J 2018, 37(2), 282
  
• The role of the gut microbiome during host ageing.
  Seidel J, Valenzano DR
  F1000Res 2018, 7
  
• Aspergillus fumigatus conidial metalloprotease Mep1p cleaves host complement proteins.
  Shende R, Wong SSW, Rapole S, Beau R, Ibrahim-Granet O, Monod M, Gührs KH, Pal JK, Latgé JP, Madan T, Aimanianda V, Sahu A
  J Biol Chem 2018, 293(40), 15538-55
  
• The Definition of Open Reading Frame Revisited.
  Sieber P, Platzer M, Schuster S
  Trends Genet 2018, 34(3), 167-70
  
• A Boolean network of the crosstalk between IGF and Wnt signaling in aging satellite cells.
  Siegle* L, Schwab* JD, Kühlwein* SD, Lausser L, Tümpel S, Pfister AS, Kühl** M, Kestler** HA
  PLoS One 2018, 13(3), e0195126 * equal contribution, ** co-senior authors
  
• LSD1 (KDM1A)-independent effects of the LSD1 inhibitor SP2509 in cancer cells.
  Sonnemann J, Zimmermann M, Marx C, Ebert F, Becker S, Lauterjung ML, Beck JF
  Br J Haematol 2018, 183(4), 494-7
  
• The microRNA miR-21 Is a Mediator of FGF8 Action on Cortical COUP-TFI Translation.
  Terrigno M, Bertacchi M, Pandolfini L, Baumgart M, Calvello M, Cellerino A, Studer M, Cremisi F
  Stem Cell Reports 2018, 11(3), 756-69
  
• Neurofibromatosis type 2 tumor suppressor protein is expressed in oligodendrocytes and regulates cell proliferation and process formation.
  Toledo* A, Grieger* E, Karram K, Morrison H, Baader SL
  PLoS One 2018, 13(5), e0196726 * equal contribution
  
• Induction chemoradiotherapy versus induction chemotherapy for potentially resectable stage IIIA (N2) non-small cell lung cancer: a systematic review and meta-analysis.
  Tong S, Qin Z, Wan M, Zhang L, Cui Y, Yao Y
  J Thorac Dis 2018, 10(4), 2428-36
  
• Rapidly evolving changes and gene loss associated with host switching in Corynebacterium pseudotuberculosis.
  Viana MVC, Sahm A, Góes Neto A, Figueiredo HCP, Wattam AR, Azevedo V
  PLoS One 2018, 13(11), e0207304
  
• A subset of chemosensory genes differs between two populations of a specialized leaf beetle after host plant shift.
  Wang D, Pentzold S, Kunert M, Groth M, Brandt W, Pasteels JM, Boland W, Burse A
  Ecol Evol 2018, 8(16), 8055-75
  
• NUFIP1 is a ribosome receptor for starvation-induced ribophagy.
  Wyant* GA, Abu-Remaileh* M, Frenkel EM, Laqtom NN, Dharamdasani V, Lewis CA, Chan SH, Heinze I, Ori** A, Sabatini** DM
  Science 2018, 360(6390), 751-8 * equal contribution, ** co-corresponding authors
  

Publications 2017:

• Common Fibril Structures Imply Systemically Conserved Protein Misfolding Pathways In Vivo.
  Annamalai K, Liberta F, Vielberg MT, Close W, Lilie H, Gührs KH, Schierhorn A, Koehler R, Schmidt A, Haupt C, Hegenbart U, Schönland S, Schmidt M, Groll M, Fändrich M
  Angew Chem Int Ed Engl 2017, 56(26), 7510-4
  
• Mutations in NOTCH1 PEST domain orchestrate CCL19-driven homing of chronic lymphocytic leukemia cells by modulating the tumor suppressor gene DUSP22.
  Arruga F, Gizdic B, Bologna C, Cignetto S, Buonincontri R, Serra S, Vaisitti T, Gizzi K, Vitale N, Garaffo G, Mereu E, Diop F, Neri F, Incarnato D, Coscia M, Allan J, Piva R, Oliviero S, Furman RR, Rossi D, Gaidano G, Deaglio S
  Leukemia 2017, 31(9), 1882-93 published during change of institution
  
• PD-L1 up-regulation in melanoma increases disease aggressiveness and is mediated through miR-17-5p.
  Audrito V, Serra S, Stingi A, Orso F, Gaudino F, Bologna C, Neri F, Garaffo G, Nassini R, Baroni G, Rulli E, Massi D, Oliviero S, Piva R, Taverna D, Mandalà M, Deaglio S
  Oncotarget 2017, 8(9), 15894-911 published during change of institution
  
• Comparative gene-expression profiling of the large cell variant of gastrointestinal marginal-zone B-cell lymphoma.
  Barth TFE, Kraus JM, Lausser L, Flossbach L, Schulte L, Holzmann K, Kestler** HA, Möller** P
  Sci Rep 2017, 7(1), 5963 ** co-senior authors
  
• Construction of a map-based reference genome sequence for barley, Hordeum vulgare L.
  Beier S, Himmelbach A, Colmsee C, Zhang XQ, Barrero RA, Zhang Q, Li L, Bayer M, Bolser D, Taudien S, Groth M, Felder M, Hastie A, Šimková H, Staňková H, Vrána J, Chan S, Muñoz-Amatriaín M, Ounit R, Wanamaker S, Schmutzer T, Aliyeva-Schnorr L, Grasso S, Tanskanen J, Sampath D, Heavens D, Cao S, Chapman B, Dai F, Han Y, Li H, Li X, Lin C, McCooke JK, Tan C, Wang S, Yin S, Zhou G, Poland JA, Bellgard MI, Houben A, Doležel J, Ayling S, Lonardi S, Langridge P, Muehlbauer GJ, Kersey P, Clark MD, Caccamo M, Schulman AH, Platzer M, Close TJ, Hansson M, Zhang G, Braumann I, Li C, Waugh R, Scholz U, Stein N, Mascher M
  Sci Data 2017, 4, 170044
  
• Citron Kinase Deficiency Leads to Chromosomal Instability and TP53-Sensitive Microcephaly.
  Bianchi FT, Tocco C, Pallavicini G, Liu Y, Vernì F, Merigliano C, Bonaccorsi S, El-Assawy N, Priano L, Gai M, Berto GE, Chiotto AMA, Sgrò F, Caramello A, Tasca L, Ala U, Neri F, Oliviero S, Mauro A, Geley S, Gatti M, Di Cunto F
  Cell Rep 2017, 18(7), 1674-86 published during change of institution
  
• Genomic and transcriptomic heterogeneity of colorectal tumours arising in Lynch syndrome.
  Binder H, Hopp L, Schweiger MR, Hoffmann S, Jühling F, Kerick M, Timmermann B, Siebert S, Grimm C, Nersisyan L, Arakelyan A, Herberg M, Buske P, Loeffler-Wirth H, Rosolowski M, Engel C, Przybilla J, Peifer M, Friedrichs N, Moeslein G, Odenthal M, Hussong M, Peters S, Holzapfel S, Nattermann J, Hueneburg R, Schmiegel W, Royer-Pokora B, Aretz S, Kloth M, Kloor M, Buettner R, Galle J, Loeffler M
  J Pathol 2017
  
• Repeated intra-specific divergence in lifespan and ageing of African annual fishes along an aridity gradient.
  Blažek R, Polačik M, Kačer P, Cellerino A, Řežucha R, Methling C, Tomášek O, Syslová K, Tozzini ET, Albrecht T, Vrtílek M, Reichard M
  Evolution Int J Org Evolution 2017, 71(2), 386-402
  
• Toxic effects of zinc ions on kinesin - Potential molecular cause of impaired intracellular transport.
  Böhm KJ
  Toxicol Lett 2017, 268, 58-62
  
• DNMT and HDAC inhibitors induce cryptic transcription start sites encoded in long terminal repeats.
  Brocks D, Schmidt CR, Daskalakis M, Jang HS, Shah NM, Li D, Li J, Zhang B, Hou Y, Laudato S, Lipka DB, Schott J, Bierhoff H, Assenov Y, Helf M, Ressnerova A, Islam MS, Lindroth AM, Haas S, Essers M, Imbusch CD, Brors B, Oehme I, Witt O, Lübbert M, Mallm JP, Rippe K, Will R, Weichenhan D, Stoecklin G, Gerhäuser C, Oakes CC, Wang T, Plass C
  Nat Genet 2017, 49(7), 1052-60 published during change of institution
  
• Renal regenerative potential of different extra-cellular vesicle populations derived from bone marrow mesenchymal stromal cells.
  Bruno S, Tapparo M, Collino F, Chiabotto G, Deregibus MC, Soares Lindoso R, Neri F, Kholia S, Giunti S, Wen S, Quesenberry P, Camussi G
  TISSUE ENG PART A 2017, 23(21-22), 1262-73
  
• Ordinal Prototype-Based Classifiers
  Burkovski A, Schirra LR, Schmid F, Lausser L, Kestler HA
  Data Science Series A (Online-First) 2017, 2/1(http://dx.doi.org/10.5445/KS
  
• What have we learned on aging from omics studies?
  Cellerino A, Ori A
  Semin Cell Dev Biol 2017, 70, 177-89
  
• MLL2, Not MLL1, Plays a Major Role in Sustaining MLL-Rearranged Acute Myeloid Leukemia.
  Chen Y, Anastassiadis K, Kranz A, Stewart AF, Arndt K, Waskow C, Yokoyama A, Jones K, Neff T, Lee Y, Ernst P
  Cancer Cell 2017, 31(6), 755-770.e6
  
• New insights into the operative network of FaEO, an enone oxidoreductase from Fragaria x ananassa Duch.
  Collu G, Farci D, Esposito F, Pintus F, Kirkpatrick J, Piano D
  Plant Mol Biol 2017, 94(1-2), 125-36
  
• HMMR acts in the PLK1-dependent spindle positioning pathway and supports neural development.
  Connell M, Chen H, Jiang J, Kuan CW, Fotovati A, Chu T, He Z, Lengyell TC, Li H, Kroll T, Li AM, Goldowitz D, Frappart L, Ploubidou A, Patel M, Pilarski LM, Simpson EM, Lange P, Allan DW, Maxwell CA
  Elife 2017, 6, e28672
  
• Depletion of mitochondria in mammalian cells through enforced mitophagy.
  Correia-Melo C, Ichim G, Tait SWG, Passos JF
  Nat Protoc 2017, 12(1), 183–194
  
• Structural Studies Revealed Active Site Distortions of Human Furin by a Small Molecule Inhibitor.
  Dahms SO, Jiao** GS, Than** ME
  ACS Chem Biol 2017, 12(5), 1211-6 ** co-corresponding authors
  
• Architecture of the yeast Elongator complex.
  Dauden MI, Kosinski J, Kolaj-Robin O, Desfosses A, Ori A, Faux C, Hoffmann NA, Onuma OF, Breunig KD, Beck M, Sachse C, Séraphin B, Glatt S, Müller CW
  EMBO Rep 2017, 18(2), 264-79
  
• Gene expression reversal toward pre-adult levels in the aging human brain and age-related loss of cellular identity.
  Dönertaş HM, İzgi H, Kamacıoğlu A, He Z, Khaitovich P, Somel M
  Sci Rep 2017, 7(1), 5894
  
• Raman and Infrared Spectroscopy Distinguishing Replicative Senescent from Proliferating Primary Human Fibroblast Cells by Detecting Spectral Differences Mainly Due to Biomolecular Alterations.
  Eberhardt K, Beleites C, Marthandan S, Matthäus C, Diekmann S, Popp J
  Anal Chem 2017, 89(5), 2937-47
  
• Raman and infrared spectroscopy differentiate senescent from proliferating cells in a human dermal fibroblast 3D skin model.
  Eberhardt K, Matthäus C, Winter D, Wiegand C, Hipler UC, Diekmann S, Popp J
  Analyst 2017, 142(23), 4405-14
  
• Genetic mutations linked to Parkinson's disease differentially control nucleolar activity in pre-symptomatic mouse models.
  Evsyukov V, Domanskyi A, Bierhoff H, Gispert S, Mustafa R, Schlaudraff F, Liss B, Parlato R
  Dis Model Mech 2017, 10(5), 633-43
  
• A new procedure for a fast soft staining of BN-PAGEs on photosynthetic complexes.
  Farci D, Kirkpatrick J, Piano D
  Electrophoresis 2017, 38(3-4), 441-6
  
• Transcriptional profiling reveals protective mechanisms in brains of long-lived mice.
  Frahm C, Srivastava A, Schmidt S, Mueller J, Groth M, Guenther M, Ji Y, Priebe S, Platzer M, Witte OW
  Neurobiol Aging 2017, 52, 23-31
  
• Evolution and antiviral specificity of interferon-induced Mx proteins of bats against Ebola-, Influenza-, and other RNA viruses.
  Fuchs J, Hölzer M, Schilling M, Patzina C, Schoen A, Hoenen T, Zimmer G, Marz M, Weber F, Müller MA, Kochs G
  J Virol 2017, 91(15), e00361-17
  
• microRNA-122 target sites in the hepatitis C virus RNA NS5B coding region and 3' untranslated region: function in replication and influence of RNA secondary structure.
  Gerresheim GK, Dünnes N, Nieder-Röhrmann A, Shalamova LA, Fricke M, Hofacker I, Höner Zu Siederdissen C, Marz M, Niepmann M
  Cell Mol Life Sci 2017, 74(4), 747-60
  
• RSK-mediated nuclear accumulation of the cold-shock Y-box protein-1 controls proliferation of T cells and T-ALL blasts.
  Gieseler-Halbach S, Meltendorf S, Pierau M, Weinert S, Heidel FH, Fischer T, Handschuh J, Braun-Dullaeus RC, Schrappe M, Lindquist JA, Mertens PR, Thomas U, Brunner-Weinzierl MC
  Cell Death Differ 2017, 24(2), 371-83
  
• Exploring Short Linear Motifs Using the ELM Database and Tools.
  Gouw M, Sámano-Sánchez H, Van Roey K, Diella F, Gibson TJ, Dinkel H
  Curr Protoc Bioinformatics 2017, 58, 8.22.1-8.22.35
  
• Combined microRNA and mRNA microfluidic TaqMan array cards for the diagnosis of malignancy of multiple types of pancreatico-biliary tumors in fine-needle aspiration material.
  Gress* TM, Lausser* L, Schirra LR, Ortmüller L, Diels R, Kong B, Michalski CW, Hackert T, Strobel O, Giese NA, Schenk M, Lawlor RT, Scarpa A, Kestler** HA, Buchholz** M
  Oncotarget 2017, 8(64), 108223-37 * equal contribution, ** co-senior authors
  
• Manipulation of cells with laser microbeam scissors and optical tweezers: a review.
  Greulich KO
  Rep Prog Phys 2017, 80(2), 026601
  
• The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
  Grüning BA, Fallmann J, Yusuf D, Will S, Erxleben A, Eggenhofer F, Houwaart T, Batut B, Videm P, Bagnacani A, Wolfien M, Lott SC, Hoogstrate Y, Hess WR, Wolkenhauer O, Hoffmann S, Akalin A, Ohler U, Stadler PF, Backofen R
  Nucleic Acids Res 2017, 45(W1), W560–W566
  
• JAK2-V617F activates β1-integrin-mediated adhesion of granulocytes to vascular cell adhesion molecule 1 (VCAM1).
  Gupta* N, Edelmann* B, Schnoeder TM, Saalfeld FC, Wolleschak D, Kliche S, Schraven B, Heidel** FH, Fischer** T
  Leukemia 2017, 31(5), 1223-6 * equal contribution, ** co-senior authors
  
• mTORC1 Activation during Repeated Regeneration Impairs Somatic Stem Cell Maintenance.
  Haller S, Kapuria S, Riley RR, O'Leary MN, Schreiber KH, Andersen JK, Melov S, Que J, Rando TA, Rock J, Kennedy BK, Rodgers JT, Jasper H
  Cell Stem Cell 2017, 21(6), 806-818.e5
  
• Gene dosage reductions of Trf1 and/or Tin2 induce telomere DNA damage and lymphoma formation in aging mice.
  Hartmann K, Illing A, Leithäuser F, Baisantry A, Quintanilla-Martinez L, Rudolph KL
  Leukemia 2017, 31(12), 2853 Erratum for Leukemia 2016 volume 30 page 749
  
• Age-dependent increase of oxidative stress regulates microRNA-29 family preserving cardiac health.
  Heid* J, Cencioni* C, Ripa* R, Baumgart* M, Atlante S, Milano G, Scopece A, Kuenne C, Guenther S, Azzimato V, Farsetti A, Rossi G, Braun T, Pompilio G, Martelli F, Zeiher AM, Cellerino** A, Gaetano** C, Spallotta** F
  Sci Rep 2017, 7(1), 16839 * equal contribution, ** co-senior authors
  
• ADAM Metalloprotease-Released Cancer Biomarkers.
  Herrlich P, Herrlich A
  Trends Cancer 2017, 3(7), 482-90
  
• Protein phosphatase 4 regulatory subunit 2 (PPP4R2) is recurrently deleted in acute myeloid leukemia and required for efficient DNA double strand break repair.
  Herzig JK, Bullinger L, Tasdogan A, Zimmermann P, Schlegel M, Teleanu V, Weber D, Rücker FG, Paschka P, Dolnik A, Schneider E, Kuchenbauer F, Heidel FH, Buske C, Döhner H, Döhner K, Gaidzik VI
  Oncotarget 2017, 8(56), 95038-53
  
• Reduced cGMP levels in CSF of AD patients correlate with severity of dementia and current depression.
  Hesse R, Lausser L, Gummert P, Schmid F, Wahler A, Schnack C, Kroker KS, Otto M, Tumani H, Kestler** HA, Rosenbrock** H, von Arnim** CAF
  Alzheimers Res Ther 2017, 9(1), 17 ** co-corresponding authors
  
• XRCC1 mutation is associated with PARP1 hyperactivation and cerebellar ataxia.
  Hoch NC, Hanzlikova H, Rulten SL, Tétreault M, Komulainen E, Ju L, Hornyak P, Zeng Z, Gittens W, Rey SA, Staras K, Mancini GMS, McKinnon PJ, Wang ZQ, Wagner JD, Care4Rare Canada Consortium, Yoon G, Caldecott KW
  Nature 2017, 541(7635), 87-91
  
• Trifunctional lipid probes for comprehensive studies of single lipid species in living cells.
  Höglinger D, Nadler A, Haberkant P, Kirkpatrick J, Schifferer M, Stein F, Hauke S, Porter FD, Schultz C
  Proc Natl Acad Sci U S A 2017, 114(7), 1566-71
  
• Proteomic Analysis Reveals GMP Synthetase as p53 Repression Target in Liver Cancer.
  Holzer K, Drucker E, Roessler S, Dauch D, Heinzmann F, Waldburger N, Eiteneuer EM, Herpel E, Breuhahn K, Zender L, Schirmacher P, Ori A, Singer S
  Am J Pathol 2017, 187(2), 228-35
  
• Corrigendum: Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells.
  Hölzer M, Krähling V, Amman F, Barth E, Bernhart SH, Carmelo VAO, Collatz M, Doose G, Eggenhofer F, Ewald J, Fallmann J, Feldhahn LM, Fricke M, Gebauer J, Gruber AJ, Hufsky F, Indrischek H, Kanton S, Linde J, Mostajo N, Ochsenreiter R, Riege K, Rivarola-Duarte L, Sahyoun AH, Saunders SJ, Seemann SE, Tanzer A, Vogel B, Wehner S, Wolfinger MT, Backofen R, Gorodkin J, Grosse I, Hofacker I, Hoffmann S, Kaleta C, Stadler PF, Becker S, Marz M
  Sci Rep 2017, 7, 39421 Erratum for Sci Rep 2016 volume 6 page 34589
  
• Software Dedicated to Virus Sequence Analysis "Bioinformatics Goes Viral".
  Hölzer M, Marz M
  In: Advances in Virus Research (edited by Beer M, Höper D) 2017, 99, 233-257, Academic Press, London
  
• PARP1 controls KLF4-mediated telomerase expression in stem cells and cancer cells.
  Hsieh MH, Chen YT, Chen YT, Lee YH, Lu J, Chien CL, Chen HF, Ho HN, Yu CJ, Wang ZQ, Teng SC
  Nucleic Acids Res 2017, 45(18), 10492-503
  
• High-throughput single-base resolution mapping of RNA 2'-O-methylated residues.
  Incarnato D, Anselmi F, Morandi E, Neri F, Maldotti M, Rapelli S, Parlato C, Basile G, Oliviero S
  Nucleic Acids Res 2017, 45(3), 1433–1441 published during change of institution
  
• Optimization of Substrate-Analogue Furin Inhibitors.
  Ivanova T, Hardes K, Kallis S, Dahms SO, Than ME, Künzel S, Böttcher-Friebertshäuser E, Lindberg I, Jiao GS, Bartenschlager R, Steinmetzer T
  ChemMedChem 2017, 12(23), 1953-68
  
• OmoMYC blunts promoter invasion by oncogenic MYC to inhibit gene expression characteristic of MYC-dependent tumors.
  Jung LA, Gebhardt A, Koelmel W, Ade CP, Walz S, Kuper J, von Eyss B, Letschert S, Redel C, d'Artista L, Biankin A, Zender L, Sauer M, Wolf E, Evan G, Kisker C, Eilers M
  Oncogene 2017, 36(14), 1911-24 published during change of institution
  
• Stepwise characterization of non-synonymous mutations in the HSV-1 thymidine kinase gene by different functional assays.
  Kaspar M, Bohn-Wippert K, Bellstedt P, Häfner S, Görlach M, Sauerbrei A
  J Virol Methods 2017, 247, 51-7
  
• In vivo properties of the disaggregase function of J-proteins and Hsc70 in Caenorhabditis elegans stress and aging.
  Kirstein J, Arnsburg K, Scior A, Szlachcic A, Guilbride DL, Morimoto RI, Bukau B, Nillegoda NB
  Aging Cell 2017, 16(6), 1414
  
• Archaeogenomic analysis of the first steps of Neolithization in Anatolia and the Aegean.
  Kılınç GM, Koptekin D, Atakuman Ç, Sümer AP, Dönertaş HM, Yaka R, Bilgin CC, Büyükkarakaya AM, Baird D, Altınışık E, Flegontov P, Götherström A, Togan İ, Somel M
  Proc Biol Sci 2017, 284(1867)
  
• Differential Effects of Vitamins A and D on the Transcriptional Landscape of Human Monocytes during Infection.
  Klassert TE, Bräuer J, Hölzer M, Stock M, Riege K, Zubiría-Barrera C, Müller MM, Rummler S, Skerka C, Marz M, Slevogt H
  Sci Rep 2017, 7, 40599
  
• Developmental stage-dependent regulation of spine formation by calcium-calmodulin-dependent protein kinase IIα and Rap1.
  Koeberle SC, Tanaka S, Kuriu T, Iwasaki H, Koeberle A, Schulz A, Helbing DL, Yamagata Y, Morrison H, Okabe S
  Sci Rep 2017, 7(1), 13409
  
• Verification and characterization of an alternative low density lipoprotein receptor-related protein 1 splice variant.
  Kolb M, Kurz S, Schäfer A, Huse K, Dietz A, Wichmann G, Birkenmeier G
  PLoS One 2017, 12(6), e0180354
  
• BAT: Bisulfite Analysis Toolkit: BAT is a toolkit to analyze DNA methylation sequencing data accurately and reproducibly. It covers standard processing and analysis steps from raw read mapping up to annotation data integration and calculation of correlati
  Kretzmer H, Otto C, Hoffmann S
  F1000Res 2017, 1490
  
• Genome Sequence of a Novel Picorna-Like RNA Virus from Feces of the Antarctic Fur Seal (Arctocephalus gazella).
  Krumbholz A, Groth M, Esefeld J, Peter HU, Zell R
  Genome Announc 2017, 5(36)
  
• The anti-tumorigenic activity of A2M-A lesson from the naked mole-rat.
  Kurz S, Thieme R, Amberg R, Groth M, Jahnke HG, Pieroh P, Horn LC, Kolb M, Huse K, Platzer M, Volke D, Dehghani F, Buzdin A, Engel K, Robitzki A, Hoffmann R, Gockel I, Birkenmeier G
  PLoS One 2017, 12(12), e0189514
  
• Hacking the stem cell niche.
  Lane SW, Heidel FH
  Blood 2017, 129(22), 2951-2
  
• Ustilago maydis effectors and their impact on virulence.
  Lanver D, Tollot M, Schweizer G, Lo Presti L, Reissmann S, Ma LS, Schuster M, Tanaka S, Liang L, Ludwig N, Kahmann R
  Nat Rev Microbiol 2017, 15(7), 409-21
  
• Reduced Insulin/IGF-1 Signaling Restores the Dynamic Properties of Key Stress Granule Proteins during Aging.
  Lechler MC, Crawford ED, Groh N, Widmaier K, Jung R, Kirstein J, Trinidad JC, Burlingame AL, David DC
  Cell Rep 2017, 18(2), 454
  
• Spindle Misorientation of Cerebral and Cerebellar Progenitors Is a Mechanistic Cause of Megalencephaly.
  Li H, Kroll T, Moll J, Frappart L, Herrlich P, Heuer H, Ploubidou A
  Stem Cell Reports 2017, 9(4), 1071-80
  
• The E3 ubiquitin ligase APC/C(C)(dh1) degrades MCPH1 after MCPH1-βTrCP2-Cdc25A-mediated mitotic entry to ensure neurogenesis.
  Liu X, Zong W, Li T, Wang Y, Xu X, Zhou** ZW, Wang** ZQ
  EMBO J 2017, 36(24), 3666-81 ** co-corresponding authors
  
• Customized workflow development and data modularization concepts for RNA-Sequencing and metatranscriptome experiments.
  Lott SC, Wolfien M, Riege K, Bagnacani A, Wolkenhauer O, Hoffmann S, Hess WR
  J Biotechnol 2017
  
• Generalized enhanced suffix array construction in external memory.
  Louza FA, Telles GP, Hoffmann S, Ciferri CDA
  Algorithms Mol Biol 2017, 12, 26
  
• Landscape of nuclear transport receptor cargo specificity.
  Mackmull MT, Klaus B, Heinze I, Chokkalingam M, Beyer A, Russell RB, Ori** A, Beck** M
  Mol Syst Biol 2017, 13(12), 962 ** co-corresponding authors, highlighted in the “Principle of Systems Biology” - Cell Systems 6 - 2018
  
• A chromosome conformation capture ordered sequence of the barley genome.
  Mascher M, Gundlach H, Himmelbach A, Beier S, Twardziok SO, Wicker T, Radchuk V, Dockter C, Hedley PE, Russell J, Bayer M, Ramsay L, Liu H, Haberer G, Zhang XQ, Zhang Q, Barrero RA, Li L, Taudien S, Groth M, Felder M, Hastie A, Šimková H, Staňková H, Vrána J, Chan S, Muñoz-Amatriaín M, Ounit R, Wanamaker S, Bolser D, Colmsee C, Schmutzer T, Aliyeva-Schnorr L, Grasso S, Tanskanen J, Chailyan A, Sampath D, Heavens D, Clissold L, Cao S, Chapman B, Dai F, Han Y, Li H, Li X, Lin C, McCooke JK, Tan C, Wang P, Wang S, Yin S, Zhou G, Poland JA, Bellgard MI, Borisjuk L, Houben A, Doležel J, Ayling S, Lonardi S, Kersey P, Langridge P, Muehlbauer GJ, Clark MD, Caccamo M, Schulman AH, Mayer KFX, Platzer M, Close TJ, Scholz U, Hansson M, Zhang G, Braumann I, Spannagl M, Li C, Waugh R, Stein N
  Nature 2017, 544(7651), 427-33
  
• A model of the onset of the senescence associated secretory phenotype after DNA damage induced senescence.
  Meyer P, Maity P, Burkovski A, Schwab J, Müssel C, Singh K, Ferreira FF, Krug L, Maier HJ, Wlaschek M, Wirth T, Kestler** HA, Scharffetter-Kochanek** K
  PLoS Comput Biol 2017, 13(12), e1005741 ** co-corresponding authors
  
• Merlin controls the repair capacity of Schwann cells after injury by regulating Hippo/YAP activity.
  Mindos T, Dun XP, North K, Doddrell RDS, Schulz A, Edwards P, Russell J, Gray B, Roberts SL, Shivane A, Mortimer G, Pirie M, Zhang N, Pan D, Morrison H, Parkinson DB
  J Cell Biol 2017, 216(2), 495-510
  
• Central nervous system involvement in acute lymphoblastic leukemia is mediated by vascular endothelial growth factor.
  Münch V, Trentin L, Herzig J, Demir S, Seyfried F, Kraus JM, Kestler HA, Köhler R, Barth TFE, Te Kronnie G, Debatin KM, Meyer LH
  Blood 2017, 130(5), 643-54
  
• Intragenic DNA methylation prevents spurious transcription initiation.
  Neri F, Rapelli S, Krepelova A, Incarnato D, Parlato C, Basile G, Maldotti M, Anselmi F, Oliviero S
  Nature 2017, 543(7643), 72-7
  
• Rejuvenating Strategies for Stem Cell-Based Therapies in Aging.
  Neves J, Sousa-Victor P, Jasper H
  Cell Stem Cell 2017, 20(2), 161-75
  
• Vitamin A regulates Akt signaling through the phospholipid fatty acid composition.
  Pein* H, Koeberle* SC, Voelkel M, Schneider F, Rossi A, Thürmer M, Loeser K, Sautebin L, Morrison H, Werz O, Koeberle A
  FASEB J 2017, 31(10), 4566-77 * equal contribution
  
• The DNA Methyltransferase 1 (DNMT1) Controls the Shape and Dynamics of Migrating POA-Derived Interneurons Fated for the Murine Cerebral Cortex.
  Pensold D, Symmank J, Hahn A, Lingner T, Salinas-Riester G, Downie BR, Ludewig F, Rotzsch A, Haag N, Andreas N, Schubert K, Hübner CA, Pieler T, Zimmer G
  Cereb Cortex 2017, 27, 5696-714
  
• N-Heterocyclic (4-Phenylpiperazin-1-yl)methanones Derived from Phenoxazine and Phenothiazine as Highly Potent Inhibitors of Tubulin Polymerization.
  Prinz H, Ridder AK, Vogel K, Böhm KJ, Ivanov I, Ghasemi J, Aghaee E, Müller K:
  J Med Chem 2017, 60(2), 749-66
  
• Activated protein C protects from GvHD via PAR2/PAR3 signalling in regulatory T-cells.
  Ranjan S, Goihl A, Kohli S, Gadi I, Pierau M, Shahzad K, Gupta D, Bock F, Wang H, Shaikh H, Kähne T, Reinhold D, Bank U, Zenclussen AC, Niemz J, Schnöder TM, Brunner-Weinzierl M, Fischer T, Kalinski T, Schraven B, Luft T, Huehn J, Naumann M, Heidel FH, Isermann B
  Nat Commun 2017, 8(1), 311
  
• Mitochondrial BAX Determines the Predisposition to Apoptosis in Human AML.
  Reichenbach F, Wiedenmann C, Schalk E, Becker D, Funk K, Scholz-Kreisel P, Todt F, Wolleschak D, Döhner K, Marquardt** JU, Heidel** F, Edlich** F
  Clin Cancer Res 2017, 23(16), 4805-16 ** co-corresponding authors
  
• Alternative splicing of SMPD1 coding for acid sphingomyelinase in major depression.
  Rhein C, Reichel M, Kramer M, Rotter A, Lenz B, Mühle C, Gulbins E, Kornhuber J
  J Affect Disord 2017, 209, 10-5
  
• Central immune tolerance depends on crosstalk between the classical and alternative NF-κB pathways in medullary thymic epithelial cells.
  Riemann M, Andreas N, Fedoseeva M, Meier E, Weih D, Freytag H, Schmidt-Ullrich R, Klein U, Wang ZQ, Weih F
  J Autoimmun 2017, 81, 56-67
  
• MicroRNA miR-29 controls a compensatory response to limit neuronal iron accumulation during adult life and aging.
  Ripa R, Dolfi L, Terrigno M, Pandolfini L, Savino A, Arcucci V, Groth M, Terzibasi Tozzini E, Baumgart M, Cellerino A
  BMC Biol 2017, 15(1), 9
  
• Pomalidomide in myeloproliferative neoplasm-associated myelofibrosis.
  Schlenk RF, Stegelmann F, Reiter A, Jost E, Gattermann N, Hebart H, Waller C, Hochhaus A, Platzbecker U, Schafhausen P, Blau IW, Verbeek W, Heidel FH, Werner M, Kreipe H, Teleanu V, Benner A, Döhner H, Grießhammer M, Döhner K
  Leukemia 2017, 31(4), 889-95
  
• Macrophage's little helper: vitamin A directs alternatively activated monocyte-derived macrophages to tissue-resident macrophages.
  Schlüter D, Heidel FH
  Cell Mol Immunol 2017, 14(10), 805-8
  
• The protein-tyrosine phosphatase DEP-1 promotes migration and phagocytic activity of microglial cells in part through negative regulation of fyn tyrosine kinase.
  Schneble N, Müller J, Kliche S, Bauer R, Wetzker R, Böhmer FD, Wang ZQ, Müller JP
  Glia 2017, 65(2), 416-28
  
• Phosphoinositide 3-kinase γ ties chemoattractant- and adrenergic control of microglial motility.
  Schneble N, Schmidt C, Bauer R, Müller JP, Monajembashi S, Wetzker R
  Mol Cell Neurosci 2017, 78, 1-8
  
• Cell autonomous expression of CXCL-10 in JAK2V617F-mutated MPN.
  Schnöder TM, Eberhardt J, Koehler M, Bierhoff HB, Weinert S, Pandey AD, Nimmagadda SC, Wolleschak D, Jöhrens K, Fischer T, Heidel FH
  J Cancer Res Clin Oncol 2017, 143(5), 807-20
  
• Niche WNT5A regulates the actin cytoskeleton during regeneration of hematopoietic stem cells.
  Schreck C, Istvánffy R, Ziegenhain C, Sippenauer T, Ruf F, Henkel L, Gärtner F, Vieth B, Florian MC, Mende N, Taubenberger A, Prendergast Á, Wagner A, Pagel C, Grziwok S, Götze KS, Guck J, Dean DC, Massberg S, Essers M, Waskow C, Geiger H, Schiemann M, Peschel C, Enard W, Oostendorp RAJ
  J Exp Med 2017, 214(1), 165-81
  
• ViSiBooL - visualization and simulation of Boolean networks with temporal constraints.
  Schwab J, Burkovski A, Siegle L, Müssel** C, Kestler** HA
  Bioinformatics 2017, 33(4), 601-4 ** co-senior authors
  
• Stability of Signaling Pathways during Aging-A Boolean Network Approach.
  Schwab JD, Siegle L, Kühlwein SD, Kühl M, Kestler HA
  Biology (Basel) 2017, 6(4)
  
• An Expanded Genome-Wide Association Study of Type 2 Diabetes in Europeans.
  Scott RA, Scott LJ, Mägi R, Marullo L, Gaulton KJ, Kaakinen M, Pervjakova N, Pers TH, Johnson AD, Eicher JD, Jackson AU, Ferreira T, Lee Y, Ma C, Steinthorsdottir V, Thorleifsson G, Qi L, Van Zuydam NR, Mahajan A, Chen H, Almgren P, Voight BF, Grallert H, Müller-Nurasyid M, Ried JS, Rayner WN, Robertson N, Karssen LC, van Leeuwen EM, Willems SM, Fuchsberger C, Kwan P, Teslovich TM, Chanda P, Li M, Lu Y, Dina C, Thuillier D, Yengo L, Jiang L, Sparso T, Kestler HA, Chheda H, Eisele L, Gustafsson S, Frånberg M, Strawbridge RJ, Benediktsson R, Hreidarsson AB, Kong A, Sigurðsson G, Kerrison ND, Luan J, Liang L, Meitinger T, Roden M, Thorand B, Esko T, Mihailov E, Fox C, Liu CT, Rybin D, Isomaa B, Lyssenko V, Tuomi T, Couper DJ, Pankow JS, Grarup N, Have CT, Jørgensen ME, Jørgensen T, Linneberg A, Cornelis MC, van Dam RM, Hunter DJ, Kraft P, Sun Q, Edkins S, Owen KR, Perry JR, Wood AR, Zeggini E, Tajes-Fernandes J, Abecasis GR, Bonnycastle LL, Chines PS, Stringham HM, Koistinen HA, Kinnunen L, Sennblad B, Mühleisen TW, Nöthen MM, Pechlivanis S, Baldassarre D, Gertow K, Humphries SE, Tremoli E, Klopp N, Meyer J, Steinbach G, Wennauer R, Eriksson JG, Mӓnnistö S, Peltonen L, Tikkanen E, Charpentier G, Eury E, Lobbens S, Gigante B, Leander K, McLeod O, Bottinger EP, Gottesman O, Ruderfer D, Blüher M, Kovacs P, Tonjes A, Maruthur NM, Scapoli C, Erbel R, Jöckel KH, Moebus S, de Faire U, Hamsten A, Stumvoll M, Deloukas P, Donnelly PJ, Frayling TM, Hattersley AT, Ripatti S, Salomaa V, Pedersen NL, Boehm BO, Bergman RN, Collins FS, Mohlke KL, Tuomilehto J, Hansen T, Pedersen O, Barroso I, Lannfelt L, Ingelsson E, Lind L, Lindgren CM, Cauchi S, Froguel P, Loos RJ, Balkau B, Boeing H, Franks PW, Gurrea AB, Palli D, van der Schouw YT, Altshuler D, Groop LC, Langenberg C, Wareham NJ, Sijbrands E, van Duijn CM, Florez JC, Meigs JB, Boerwinkle E, Gieger C, Strauch K, Metspalu A, Morris AD, Palmer CN, Hu FB, Thorsteinsdottir U, Stefansson K, Dupuis J, Morris AP, Boehnke M, McCarthy MI, Prokopenko I, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
  Diabetes 2017, 66(11), 2888-902
  
• Regulation of life span by the gut microbiota in the short-lived African turquoise killifish.
  Smith P, Willemsen D, Popkes M, Metge F, Gandiwa E, Reichard M, Valenzano DR
  Elife 2017, 6
  
• TRE5-A retrotransposition profiling reveals putative RNA polymerase III transcription complex binding sites on the Dictyostelium extrachromosomal rDNA element.
  Spaller T, Groth M, Glöckner G, Winckler T
  PLoS One 2017, 12(4), e0175729
  
• Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer.
  Starke R, Müller M, Gaspar M, Marz M, Küsel K, Totsche KU, von Bergen M, Jehmlich N
  J PROTEOMICS 2017, 152, 153-60
  
• Deletion of Gas2l3 in mice leads to specific defects in cardiomyocyte cytokinesis during development.
  Stopp S, Gründl M, Fackler M, Malkmus J, Leone M, Naumann R, Frantz S, Wolf E, von Eyss B, Engel FB, Gaubatz S
  Proc Natl Acad Sci U S A 2017, 114(30), 8029-34 published during change of institution
  
• Switch-like behavior enables Wnt11 concentration specific response during dorso-ventral axis formation in Xenopus laevis.
  Sträng JE, Schuler R, Kühl** M, Kestler** HA
  J Theor Biol 2017, 429, 82-94 ** co-senior authors
  
• Cdc45-induced loading of human RPA onto single-stranded DNA.
  Szambowska A, Tessmer I, Prus P, Schlott B, Pospiech H, Grosse F
  Nucleic Acids Res 2017, 45(6), 3217-30
  
• Lysine Acetylation and Deacetylation in Brain Development and Neuropathies.
  Tapias A, Wang ZQ
  Genomics Proteomics Bioinformatics 2017, 15(1), 19-36
  
• Variation and Functional Impact of Neanderthal Ancestry in Western Asia.
  Taskent RO, Alioglu ND, Fer E, Melike Donertas H, Somel M, Gokcumen O
  Genome Biol Evol 2017, 9(12), 3516
  
• Rictor/mTORC2 deficiency enhances keratinocyte stress tolerance via mitohormesis.
  Tassone B, Saoncella S, Neri F, Ala U, Brusa D, Magnuson MA, Provero P, Oliviero S, Riganti C, Calautti E
  Cell Death Differ 2017, 24(4), 731-46 published during change of institution
  
• RHEB1 insufficiency in aged male mice is associated with stress-induced seizures.
  Tian Q, Gromov P, Clement JH, Wang Y, Riemann M, Weih F, Sun XX, Dai MS, Fedorov LM
  Geroscience 2017, 39(5-6), 557-70
  
• Synergistic killing of FLT3ITD-positive AML cells by combined inhibition of tyrosine-kinase activity and N-glycosylation.
  Tsitsipatis D, Jayavelu AK, Müller JP, Bauer R, Schmidt-Arras D, Mahboobi S, Schnöder TM, Heidel F, Böhmer FD
  Oncotarget 2017, 8(16), 26613-24
  
• Keeping it complicated: Mitochondrial genome plasticity across diplonemids.
  Valach M, Moreira S, Hoffmann S, Stadler PF, Burger G
  Sci Rep 2017, 7(1), 14166
  
• Non-canonical aging model systems and why we need them.
  Valenzano DR, Aboobaker A, Seluanov A, Gorbunova V
  EMBO J 2017, 36(8), 959-63
  
• The sorting receptor Rer1 controls Purkinje cell function via voltage gated sodium channels.
  Valkova C, Liebmann L, Krämer A, Hübner CA, Kaether C
  Sci Rep 2017, 7, 41248
  
• NMR spectroscopic studies of a TAT-derived model peptide in imidazolium-based ILs: influence on chemical shifts and the cis/trans equilibrium state.
  Wiedemann C, Ohlenschläger O, Mrestani-Klaus C, Bordusa F
  Phys Chem Chem Phys 2017, 19(35), 24115-25
  
• Synthesis and Evaluation of Amyloid β Derived and Amyloid β Independent Enhancers of the Peroxidase-like Activity of Heme.
  Wißbrock A, Kühl T, Silbermann K, Becker AJ, Ohlenschläger** O, Imhof** D
  J Med Chem 2017, 60(1), 373-85 ** co-corresponding authors
  
• A Stably Protonated Adenine Nucleotide with a Highly Shifted pKa Value Stabilizes the Tertiary Structure of a GTP-Binding RNA Aptamer.
  Wolter AC, Weickhmann AK, Nasiri AH, Hantke K, Ohlenschläger O, Wunderlich CH, Kreutz C, Duchardt-Ferner E, Wöhnert J
  Angew Chem Int Ed Engl 2017, 56(1), 401-4
  
• Nucleosome Positioning Assay
  Zhao Z, Bierhoff H
  Bio-protocol 2017, 7(10), e2285
  

Publications 2016:

• Differential sensitivity of lipegfilgrastim and pegfilgrastim to neutrophil elastase correlates with differences in clinical pharmacokinetic profile.
  Abdolzade-Bavil A, von Kerczek A, Cooksey BA, Kaufman T, Krasney PA, Pukac L, Görlach M, Lammerich A, Scheckermann C, Allgaier H, Shen WD, Liu PM
  J Clin Pharmacol 2016, 56(2), 186-94
  
• Polymorphism of Amyloid Fibrils In Vivo.
  Annamalai K, Gührs KH, Koehler R, Schmidt M, Michel H, Loos C, Gaffney PM, Sigurdson CJ, Hegenbart U, Schönland S, Fändrich M
  Angew Chem Int Ed Engl 2016, 55(15), 4822-5
  
• Impact of FLT3-ITD location on sensitivity to TKI-therapy in vitro and in vivo.
  Arreba-Tutusaus P, Mack TS, Bullinger L, Schnöder TM, Polanetzki A, Weinert S, Ballaschk A, Wang Z, Deshpande AJ, Armstrong SA, Döhner K, Fischer T, Heidel FH
  Leukemia 2016, 30(5), 1220-5
  
• Multiplex sequencing of bacterial artificial chromosomes for assembling complex plant genomes.
  Beier S, Himmelbach A, Schmutzer T, Felder M, Taudien S, Mayer KFX, Platzer M, Stein N, Scholz U, Mascher M
  Plant Biotechnol J 2016, 14(7), 1511-22
  
• Changes of bivalent chromatin coincide with increased expression of developmental genes in cancer.
  Bernhart SH, Kretzmer H, Holdt LM, Jühling F, Ammerpohl O, Bergmann AK, Northoff BH, Doose G, Siebert R, Stadler PF, Hoffmann S
  Sci Rep 2016, 6, 37393
  
• Blood stem cells: from beginning to end.
  Bigas A, Waskow C
  Development 2016, 143(19), 3429-33
  
• From the bush to the bench: the annual Nothobranchius fishes as a new model system in biology.
  Cellerino A, Valenzano DR, Reichard M
  Biol Rev Camb Philos Soc 2016, 91(2), 511-33
  
• Metabolic regulation of stem cell function in tissue homeostasis and organismal ageing.
  Chandel NS, Jasper H, Ho TT, Passegué E
  Nat Cell Biol 2016, 18(8), 823-32
  
• Powering senescence: The ugly side of mitochondria.
  Correia-Melo C, Birch J, Passos JF
  Cell Cycle 2016, 15(19), 2541
  
• Mitochondria are required for pro-ageing features of the senescent phenotype.
  Correia-Melo C, Marques FDM, Anderson R, Hewitt G, Hewitt R, Cole J, Carroll BM, Miwa S, Birch J, Merz A, Rushton MD, Charles M, Jurk D, Tait SWG, Czapiewski R, Greaves L, Nelson G, Bohlooly-Y M, Rodriguez-Cuenca S, Vidal-Puig A, Mann D, Saretzki G, Quarato G, Green DR, Adams PD, von Zglinicki T, Korolchuk VI, Passos JF
  EMBO J 2016, 35(7), 724
  
• Demystifying the role of mitochondria in senescence.
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• Discovering miRNA regulatory networks in Holt-Oram Syndrome using a Zebrafish model
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• Boolean modeling identifies greatwall/MASTL as an important regulator in the AURKA network of neuroblastoma.
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• The structure of a furin-antibody complex explains non-competitive inhibition by steric exclusion of substrate conformers.
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• Structure of the unliganded form of the proprotein convertase furin suggests activation by a substrate-induced mechanism.
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• The role of hypothalamic NF-κB signaling in the response of the HPT-axis to acute inflammation in female mice.
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• Analysis of cultivable microbiota and diet intake pattern of the long-lived naked mole-rat.
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• Ethyl Pyruvate: An Anti-Microbial Agent that Selectively Targets Pathobionts and Biofilms.
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• Sexual Dimorphism: How Female Cells Win the Race.
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• What a Difference an OH Makes: Conformational Dynamics as the Basis for the Ligand Specificity of the Neomycin-Sensing Riboswitch.
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• Expression and function of ABC-transporter protein ABCB1 correlates with inhibitory capacity of Ruxolitinib in vitro and in vivo.
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• DNA Damage as a Critical Factor of Stem Cell Aging and Organ Homeostasis
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• Multifocal Nerve Lesions and LZTR1 Germline Mutations in Segmental Schwannomatosis.
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• Interplay between redox and protein homeostasis.
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• Collapse of redox homeostasis during aging and stress.
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• Automated structure modeling of large protein assemblies using crosslinks as distance restraints.
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• The tumour suppressor CYLD regulates the p53 DNA damage response.
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• S100A11 plays a role in homologous recombination and genome maintenance by influencing the persistence of RAD51 in DNA repair foci.
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• High Copy Numbers of Beta-Defensin Cluster on 8p23.1 Confer Genetic Susceptibility and Modulate the Physical Course of Hidradenitis Suppurativa/Acne Inversa.
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• You Are What You Eat: Linking High-Fat Diet to Stem Cell Dysfunction and Tumorigenesis.
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• DNA damage tolerance pathway involving DNA polymerase ι and the tumor suppressor p53 regulates DNA replication fork progression.
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• Gene Dosage Reductions of Trf1 and/or Tin2 Induce Telomere DNA Damage and Lymphoma Formation in Aging Mice.
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• Feedback activation of neurofibromin terminates growth factor-induced Ras activation.
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• Age-Dependent Changes of Monocarboxylate Transporter 8 Availability in the Postnatal Murine Retina.
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• SQSTM1/p62 mediates crosstalk between autophagy and the UPS in DNA repair.
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• Mre11 Is Essential for the Removal of Lethal Topoisomerase 2 Covalent Cleavage Complexes.
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• Whole-Genome Sequence of Chlamydia gallinacea Type Strain 08-1274/3.
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• Leukemogenic potency of the novel FLT3-N676K mutant.
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• Wnt/β-catenin signaling via Axin2 is required for myogenesis and, together with YAP/Taz and Tead1, active in IIa/IIx muscle fibers.
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• Control of apoptosis by Drosophila DCAF12.
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• RNA structure framework: automated transcriptome-wide reconstruction of RNA secondary structures from high-throughput structure probing data.
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  Bioinformatics 2016, 32(3), 459-61 published during change of institution
  
• Human DNA polymerase α interacts with mismatch repair proteins MSH2 and MSH6.
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• Ubiquitin-Dependent Turnover of MYC Antagonizes MYC/PAF1C Complex Accumulation to Drive Transcriptional Elongation.
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• NOX4-driven ROS formation mediates PTP inactivation and cell transformation in FLT3ITD-positive AML cells.
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  Leukemia 2016, 30(2), 473-83
  
• Characteristics and treatment of polycythemia vera patients in clinical practice: a multicenter chart review on 1476 individuals in Germany.
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• A homolog of Blade-On-Petiole 1 and 2 (BOP1/2) controls internode length and homeotic changes of the barley inflorescence.
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• metilene: fast and sensitive calling of differentially methylated regions from bisulfite sequencing data.
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  Genome Res 2016, 26(2), 256-62
  
• PLAC8 Localizes to the Inner Plasma Membrane of Pancreatic Cancer Cells and Regulates Cell Growth and Disease Progression through Critical Cell-Cycle Regulatory Pathways.
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• Molecular specification of germ layers in vertebrate embryos.
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• The short-lived African turquoise killifish: an emerging experimental model for ageing.
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• Structure of the ribosome post-recycling complex probed by chemical cross-linking and mass spectrometry.
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• The Demographic Development of the First Farmers in Anatolia.
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• Streptococci Engage TLR13 on Myeloid Cells in a Site-Specific Fashion.
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• Developmental endothelial locus-1 modulates platelet-monocyte interactions and instant blood-mediated inflammatory reaction in islet transplantation.
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• Phagocytosis of bone marrow derived macrophages is controlled by phosphoinositide 3-kinase γ.
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• Analysis of an echovirus 18 outbreak in Thuringia, Germany: insights into the molecular epidemiology and evolution of several enterovirus species B members.
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• Solvent Removal Induces a Reversible β-to-α Switch in Oligomeric Aβ Peptide.
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• Abolishing Aging? Ethical implications of biological research on aging. Gemeinsames Seminar des Fritz Lipmann Institutes und des Ethikzentrums der Friedrich-Schiller-Universität Jena
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• Gastrointestinal stem cells in health and disease: from flies to humans.
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• Preventing Age-Related Decline of Gut Compartmentalization Limits Microbiota Dysbiosis and Extends Lifespan.
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• DNA Damage Response in Hematopoietic Stem Cell Ageing.
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• Telomere shortening leads to earlier age of onset in ALS mice.
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• Different promoter affinities account for specificity in MYC-dependent gene regulation.
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• Transcriptomic profiling of Alexandrium fundyense during physical interaction with or exposure to chemical signals from the parasite Amoebophrya.
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• Intestinal IRE1 Is Required for Increased Triglyceride Metabolism and Longer Lifespan under Dietary Restriction.
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• The distribution of α-kleisin during meiosis in the holocentromeric plant Luzula elegans.
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• Coronavirus cis-Acting RNA Elements.
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• The long intergenic non-coding RNA CCR492 functions as a let-7 competitive endogenous RNA to regulate c-Myc expression.
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• Conserved Senescence Associated Genes and Pathways in Primary Human Fibroblasts Detected by RNA-Seq.
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• Conserved genes and pathways in primary human fibroblast strains undergoing replicative and radiation induced senescence.
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• Olfactory phenotypic expression unveils human aging.
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• Multilineage readout after HSC expansion - erythrocytes matter.
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• A standardized production pipeline for high profile targets from Mycobacterium tuberculosis.
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• BiTrinA - multiscale binarization and trinarization with quality analysis.
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• Methylation-assisted bisulfite sequencing to simultaneously map 5fC and 5caC on a genome-wide scale for DNA demethylation analysis.
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• Heterozygous PALB2 c.1592delT mutation channels DNA double-strand break repair into error-prone pathways in breast cancer patients.
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• Spatiotemporal variation of mammalian protein complex stoichiometries.
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• Growth factor and co-receptor release by structural regulation of substrate metalloprotease accessibility.
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• Comparative genomics to explore phylogenetic relationship, cryptic sexual potential and host specificity of Rhynchosporium species on grasses.
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• Immunofluorescence Staining of Wt1 on Sections of Zebrafish Embryos and Larvae.
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• Genotyping of herpes simplex virus type 1 by whole-genome sequencing.
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• MHC-dependent mate choice is linked to a trace-amine-associated receptor gene in a mammal.
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• The endosomal transcriptional regulator RNF11 integrates degradation and transport of EGFR.
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• Anti-amyloid compounds protect from silica nanoparticle-induced neurotoxicity in the nematode C. elegans.
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• Telomere shortening leads to an acceleration of synucleinopathy and impaired microglia response in a genetic mouse model.
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• Genetic Factors of the Disease Course after Sepsis: A Genome-Wide Study for 28Day Mortality.
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  Bioinformatics 2016, 32(12), 1891-4
  
• Phosphoinositide 3-Kinase γ Restrains Neurotoxic Effects of Microglia After Focal Brain Ischemia.
  Schmidt C, Frahm C, Schneble N, Müller JP, Brodhun M, Franco I, Witte OW, Hirsch E, Wetzker R, Bauer R
  Mol Neurobiol 2016, 53(8), 5468-79
  
• Lipedema – lack of evidence for the involvement of tyrosine kinases.
  Schneble N, Wetzker R, Wollina U
  J Biol Regul Homeost Agents 2016, 30(1), 161-3
  
• The bulk of the hematopoietic stem cell population is dispensable for murine steady-state and stress hematopoiesis.
  Schoedel KB, Morcos MNF, Zerjatke T, Roeder I, Grinenko T, Voehringer D, Göthert JR, Waskow C, Roers A, Gerbaulet A
  Blood 2016, 128(19), 2285-96
  
• An atomic model of HIV-1 capsid-SP1 reveals structures regulating assembly and maturation.
  Schur FKM, Obr M, Hagen WJH, Wan W, Jakobi AJ, Kirkpatrick JM, Sachse C, Kräusslich HG, Briggs JAG
  Science 2016, 353(6298), 506-8 published during change of institution
  
• Cellular strategies to cope with protein aggregation.
  Scior A, Juenemann K, Kirstein J
  Essays Biochem 2016, 60(2), 153
  
• Epidermal Nbn deletion causes premature hair loss and a phenotype resembling psoriasiform dermatitis.
  Seidel P, Remus M, Delacher M, Grigaravicius P, Reuss DE, Frappart L, von Deimling A, Feueuer M, Abdollahi A, Frappart PO
  Oncotarget 2016, 7(17), 23006-18
  
• BCL3 Reduces the Sterile Inflammatory Response in Pancreatic and Biliary Tissues.
  Song L, Wörmann S, Ai J, Neuhöfer P, Lesina M, Diakopoulos KN, Ruess D, Treiber M, Witt H, Bassermann F, Halangk W, Steiner JM, Esposito I, Rosendahl J, Schmid RM, Riemann M, Algül H
  Gastroenterology 2016, 150(2), 499-512
  
• Polymorphisms of cystathionine beta-synthase gene are associated with susceptibility to sepsis.
  Sponholz C, Kramer M, Schöneweck F, Menzel U, Inanloo Rahatloo K, Giamarellos-Bourboulis EJ, Papavassileiou V, Lymberopoulou K, Pavlaki M, Koutelidakis I, Perdios I, Scherag A, Bauer M, Platzer M, Huse K
  Eur J Hum Genet 2016, 24(7), 1041-8
  
• Genetic Factors of the Disease Course After Sepsis: Rare Deleterious Variants Are Predictive.
  Taudien* S, Lausser* L, Giamarellos-Bourboulis EJ, Sponholz C, Schöneweck F, Felder M, Schirra LR, Schmid F, Gogos C, Groth S, Petersen BS, Franke A, Lieb W, Huse K, Zipfel PF, Kurzai O, Moepps B, Gierschik P, Bauer M, Scherag A, Kestler** HA, Platzer** M
  EBioMedicine 2016, 12, 227-38 * equal contribution, ** co-senior authors
  
• PARP activation promotes nuclear AID accumulation in lymphoma cells.
  Tepper S, Jeschke J, Böttcher K, Schmidt A, Davari K, Müller P, Kremmer E, Hemmerich P, Pfeil I, Jungnickel B
  Oncotarget 2016, 7(11), 13197-208
  
• Palbociclib treatment of FLT3-ITD+ AML cells uncovers a kinase-dependent transcriptional regulation of FLT3 and PIM1 by CDK6.
  Uras IZ, Walter GJ, Scheicher R, Bellutti F, Prchal-Murphy M, Tigan AS, Valent P, Heidel FH, Kubicek S, Scholl C, Fröhling S, Sexl V
  Blood 2016, 127(23), 2890-902
  
• Stress promotes Arabidopsis - Piriformospora indica interaction.
  Vahabi K, Dorcheh SK, Monajembashi S, Westermann M, Reichelt M, Falkenberg D, Hemmerich P, Sherameti I, Oelmüller R
  Plant Signal Behav 2016, 11(5), e1136763
  
• NEMO Prevents RIP Kinase 1-Mediated Epithelial Cell Death and Chronic Intestinal Inflammation by NF-κB-Dependent and -Independent Functions.
  Vlantis K, Wullaert A, Polykratis A, Kondylis V, Dannappel M, Schwarzer R, Welz P, Corona T, Walczak H, Weih F, Klein U, Kelliher M, Pasparakis M
  Immunity 2016, 44(3), 553-67
  
• TraqBio - Flexible Progress Tracking for Core Unit Projects.
  Völkel G, Wiese S, Holzmann K, Kraus JM, Schneider F, Görlach M, Kestler HA
  PLoS One 2016, 11(9), e0162857
  
• Characterization of SKAP/Kinastrin isoforms - The N-terminus defines tissue specificity and Pontin binding.
  Vranesic AC, Reiche J, Hoischen C, Wohlmann A, Bratsch J, Friedrich K, Günes B, Cappallo-Obermann H, Kirchhoff C, Diekmann S, Günes C, Huber O
  Hum Mol Genet 2016, 25(13), 2838-52
  
• SIRT6 Controls Hematopoietic Stem Cell Homeostasis through Epigenetic Regulation of Wnt Signaling.
  Wang H, Diao D, Shi Z, Zhu X, Gao Y, Gao S, Liu X, Wu Y, Rudolph KL, Liu G, Li T, Ju Z
  Cell Stem Cell 2016, 18(4), 495-507
  
• A Set of Efficient nD NMR Protocols for Resonance Assignments of Intrinsically Disordered Proteins.
  Wiedemann C, Bellstedt P, Häfner S, Herbst C, Bordusa F, Görlach M, Ohlenschläger O, Ramachandran R
  Chemphyschem 2016, 17(13), 1961-8
  
• Analysis of Large and Complex Data
  Wilhelm AFX, Kestler HA (eds)
  Book series: Studies in Classification, Data Analysis, and Knowledge Organization 2016, Springer International Publishin
  
• The Gut Microbiome as Therapeutic Target in Central Nervous System Diseases: Implications for Stroke.
  Winek K, Dirnagl U, Meisel A
  Neurotherapeutics 2016, 13(4), 762-74
  
• Depletion of Cultivatable Gut Microbiota by Broad-Spectrum Antibiotic Pretreatment Worsens Outcome After Murine Stroke.
  Winek K, Engel O, Koduah P, Heimesaat MM, Fischer A, Bereswill S, Dames C, Kershaw O, Gruber AD, Curato C, Oyama N, Meisel C, Meisel A, Dirnagl U
  Stroke 2016, 47(5), 1354-63
  
• Gut microbiota impact on stroke outcome: Fad or fact?
  Winek K, Meisel A, Dirnagl U
  J Cereb Blood Flow Metab 2016, 36(5), 891-8
  
• Cellular apoptosis susceptibility (CAS) is linked to integrin β1 and required for tumor cell migration and invasion in hepatocellular carcinoma (HCC).
  Winkler J, Roessler S, Sticht C, DiGuilio AL, Drucker E, Holzer K, Eiteneuer E, Herpel E, Breuhahn K, Gretz N, Schirmacher P, Ori A, Singer S
  Oncotarget 2016, 7(16), 22883-92
  
• Finding approximate gene clusters with Gecko 3.
  Winter S, Jahn K, Wehner S, Kuchenbecker L, Marz M, Stoye J, Böcker S
  Nucleic Acids Res 2016, 44(20), 9600-10
  
• Chronic myelogenous leukemia evolving after treatment of multiple myeloma.
  Wolleschak D, Heidel FH
  Blood 2016, 128(1), 146
  
• Attenuated LKB1-SIK1 signaling promotes epithelial-mesenchymal transition and radioresistance of non-small cell lung cancer cells.
  Yao YH, Cui Y, Qiu XN, Zhang LZ, Zhang W, Li H, Yu JM
  Chin J Cancer 2016, 35(1), 50
  
• Inhibition of cargo export at ER-exit sites and the trans-Golgi network by the secretion inhibitor FLI-06.
  Yonemura Y, Li X, Müller K, Krämer A, Atigbire P, Mentrup T, Feuerhake T, Kroll T, Shomron O, Nohl R, Arndt HD, Hoischen C, Hemmerich P, Hirschberg K, Kaether C
  J Cell Sci 2016, 129(20), 3868-77
  
• Age-Dependent Changes of Monocarboxylate Transporter 8 Availability in the Postnatal Murine Retina
  Yoshiyuki H, Szafranski K
  Front Cell Neurosci 2016, http://dx.doi.org/10.3389/fncel.
  
• lncRNA-Induced Nucleosome Repositioning Reinforces Transcriptional Repression of rRNA Genes upon Hypotonic Stress.
  Zhao Z, Dammert MA, Grummt I, Bierhoff H
  Cell Rep 2016, 14(8), 1876-82
  
• Heat shock represses rRNA synthesis by inactivation of TIF-IA and lncRNA-dependent changes in nucleosome positioning.
  Zhao Z, Dammert MA, Hoppe S, Bierhoff H, Grummt I
  Nucleic Acids Res 2016, 44(17), 8144-52
  

Publications 2015:

• Aging-Induced Stem Cell Mutations as Drivers for Disease and Cancer.
  Adams* PD, Jasper* H, Rudolph* KL
  Cell Stem Cell 2015, 16(6), 601-12 ** co-corresponding authors
  
• Amyloid domains in the cell nucleus controlled by nucleoskeletal protein lamin B1 reveal a new pathway of mercury neurotoxicity.
  Arnhold F, Gührs KH, von Mikecz A
  PeerJ 2015, 3, e754
  
• Stem Cells and Aging: What’s Next?
  Artandi SE, Blau HM, de Haan G, Geiger H, Goodell MA, Jones L, Levine RL, Munoz-Canoves P, Rodewald HR, Wagers A, Wang ZQ, Yamashita Y
  Cell Stem Cell 2015, 16, 578-81
  
• Haemocytes control stem cell activity in the Drosophila intestine.
  Ayyaz A, Li H, Jasper H
  Nat Cell Biol 2015, 17(6), 736-48
  
• Differential Regulation of MicroRNAs in End-Stage Failing Hearts Is Associated with Left Ventricular Assist Device Unloading.
  Barsanti C, Trivella MG, D'Aurizio R, El Baroudi M, Baumgart M, Groth M, Caruso R, Verde A, Botta L, Cozzi L, Pitto L
  Biomed Res Int 2015, 2015, 592512
  
• Comparison of captive lifespan, age-associated liver neoplasias and age-dependent gene expression between two annual fish species: Nothobranchius furzeri and Nothobranchius korthause.
  Baumgart M, Di Cicco E, Rossi G, Cellerino A, Tozzini ET
  Biogerontology 2015, 16(1), 63-9
  
• DNA damage response at telomeres contributes to lung aging and chronic obstructive pulmonary disease.
  Birch J, Anderson RK, Correia-Melo C, Jurk D, Hewitt G, Marques FM, Green NJ, Moisey E, Birrell MA, Belvisi MG, Black F, Taylor JJ, Fisher AJ, De Soyza A, Passos JF
  Am J Physiol Lung Cell Mol Physiol 2015, 309(10), L1124
  
• Elevated copper ion levels as potential cause of impaired kinesin-dependent transport processes.
  Böhm KJ
  Arch Toxicol 2015, 89(4), 565-72
  
• Aluminium-induced kinesin inactivation as potential molecular cause of impairment of neuronal transport processes.
  Böhm KJ, Shabanpour M, Kalchishkova N
  Chem Res Toxicol 2015, 28(6), 1275-81
  
• A genome-wide association study confirms PNPLA3 and identifies TM6SF2 and MBOAT7 as risk loci for alcohol-related cirrhosis.
  Buch S, Stickel F, Trépo E, Way M, Herrmann A, Nischalke HD, Brosch M, Rosendahl J, Berg T, Ridinger M, Rietschel M, McQuillin A, Frank J, Kiefer F, Schreiber S, Lieb W, Soyka M, Semmo N, Aigner E, Datz C, Schmelz R, Brückner S, Zeissig S, Stephan AM, Wodarz N, Devière J, Clumeck N, Sarrazin C, Lammert F, Gustot T, Deltenre P, Völzke H, Lerch MM, Mayerle J, Eyer F, Schafmayer C, Cichon S, Nöthen MM, Nothnagel M, Ellinghaus D, Huse K, Franke A, Zopf S, Hellerbrand C, Moreno C, Franchimont D, Morgan MY, Hampe J
  Nat Genet 2015, 47(12), 1443-8
  
• Phenotypic regulation of the sphingosine 1-phosphate receptor Miles Apart by GRK2.
  Burczyk MS, Burkhalter MD, Blätte T, Matysik S, Caron MG, Barak LS, Philipp M
  Biochemistry 2015, 54(3), 765-75
  
• Genome instability of ageing stem cells-Induction and defence mechanisms.
  Burkhalter MD, Rudolph KL, Sperka T
  Ageing Res Rev 2015, 23(Pt A), 29-36
  
• Symportin 1 chaperones 5S RNP assembly during ribosome biogenesis by occupying an essential rRNA-binding site.
  Calviño FR, Kharde S, Ori A, Hendricks A, Wild K, Kressler D, Bange G, Hurt E, Beck M, Sinning I
  Nat Commun 2015, 6, 6510
  
• Annual fishes of the genus Nothobranchius as an experimental model. p.93-99 in Annual Fishes
  Cellerino A
  In: Annual Fishes, Life History Strategy, Diversity and Evolution. (edited by Beiros N, García G, de Sá R) 2015, 93-99, CRC Press Taylor and Fran
  
• Editorial for "Regulatory RNAs in the nervous system".
  Cellerino A, Bally-Cuif L, Pizzorusso T
  Front Cell Neurosci 2015, 9, 38
  
• MicroRNA 19a replacement partially rescues fin and cardiac defects in zebrafish model of Holt Oram syndrome.
  Chiavacci E, D'Aurizio R, Guzzolino E, Russo F, Baumgart M, Groth M, Mariani L, D'Onofrio M, Arisi I, Pellegrini M, Cellerino A, Cremisi F, Pitto L
  Sci Rep 2015, 5, 18240
  
• AKI Recovery Induced by Mesenchymal Stromal Cell-Derived Extracellular Vesicles Carrying MicroRNAs.
  Collino F, Bruno S, Incarnato D, Dettori D, Neri F, Provero P, Pomatto M, Oliviero S, Tetta C, Quesenberry PJ, Camussi G
  J Am Soc Nephrol 2015, 26(10), 2349-60
  
• Mitochondria: Are they causal players in cellular senescence?
  Correia-Melo C, Passos JF
  Biochim Biophys Acta 2015, 1847(11), 1373
  
• Interaction of the amyloid precursor protein-like protein 1 (APLP1) E2 domain with heparan sulfate involves two distinct binding modes.
  Dahms SO, Mayer MC, Roeser D, Multhaup G, Than ME
  Acta Crystallogr D Biol Crystallogr 2015, 71(Pt 3), 494-504
  
• Signal integration by Ca(2+) regulates intestinal stem-cell activity.
  Deng H, Gerencser AA, Jasper H
  Nature 2015, 528(7581), 212-7
  
• Mutants of Metal Binding Site M1 in APP E2 Show Metal Specific Differences in Binding of Heparin but Not of sorLA.
  Dienemann C, Coburger I, Mehmedbasic A, Andersen OM, Than ME
  Biochemistry 2015, 54(15), 2490-9
  
• MicroRNAs provide the first evidence of genetic link between diapause and aging in vertebrates
  Dolfi* L, Baumgart* M, Groth M, Platzer M, Cellerino A
  bioRxiv 2015, https://doi.org/10.1101/017848 * equal contribution
  
• MINCR is a MYC-induced lncRNA able to modulate MYC's transcriptional network in Burkitt lymphoma cells.
  Doose G, Haake A, Bernhart SH, López C, Duggimpudi S, Wojciech F, Bergmann AK, Borkhardt A, Burkhardt B, Claviez A, Dimitrova L, Haas S, Hoell JI, Hummel M, Karsch D, Klapper W, Kleo K, Kretzmer H, Kreuz M, Küppers R, Lawerenz C, Lenze D, Loeffler M, Mantovani-Löffler L, Möller P, Ott G, Richter J, Rohde M, Rosenstiel P, Rosenwald A, Schilhabel M, Schneider M, Scholz I, Stilgenbauer S, Stunnenberg HG, Szczepanowski M, Trümper L, Weniger MA, ICGC MMML-Seq Consortium, Hoffmann S, Siebert R, Iaccarino I
  Proc Natl Acad Sci U S A 2015, 112(38), E5261-70
  
• Dystrophin expression in muscle stem cells regulates their polarity and asymmetric division.
  Dumont NA, Wang YX, von Maltzahn J, Pasut A, Bentzinger CF, Brun CE, Rudnicki MA
  Nat Med 2015, 21(12), 1455-63
  
• SPLIFF: A Single-Cell Method to Map Protein-Protein Interactions in Time and Space.
  Dünkler A, Rösler R, Kestler HA, Moreno-Andrés D, Johnsson N
  Methods Mol Biol 2015, 1346, 151-68 published during change of institution
  
• The butterfly plant arms-race escalated by gene and genome duplications.
  Edger PP, Heidel-Fischer HM, Bekaert M, Rota J, Glöckner G, Platts AE, Heckel DG, Der JP, Wafula EK, Tang M, Hofberger JA, Smithson A, Hall JC, Blanchette M, Bureau TE, Wright SI, dePamphilis CW, Schranz ME, Barker MS, Conant GC, Wahlberg N, Vogel H, Pires JC, Wheat CW
  Proc Natl Acad Sci U S A 2015, 112(27), 8362-6
  
• Cholinergic Pathway Suppresses Pulmonary Innate Immunity Facilitating Pneumonia After Stroke.
  Engel O, Akyüz L, da Costa Goncalves AC, Winek K, Dames C, Thielke M, Herold S, Böttcher C, Priller J, Volk HD, Dirnagl U, Meisel C, Meisel A
  Stroke 2015, 46(11), 3232-40
  
• Quality control mechanisms in cellular and systemic DNA damage responses.
  Ermolaeva** MA, Dakhovnik A, Schumacher** B
  Ageing Res Rev 2015, 23(Pt A), 3-11 ** co-corresponding authors
  
• Mutual exacerbation of peroxisome proliferator-activated receptor γ coactivator 1α deregulation and α-synuclein oligomerization.
  Eschbach J, von Einem B, Müller K, Bayer H, Scheffold A, Morrison BE, Rudolph KL, Thal DR, Witting A, Weydt P, Otto M, Fauler M, Liss B, McLean PJ, Spada ARL, Ludolph AC, Weishaupt JH, Danzer KM
  Ann Neurol 2015, 77(1), 15-32
  
• Telomeres and Stem Cell Aging
  Felix DA
  In: Adult Stem Cells in Aging, Diseases and Cancer (edited by Rudolph KL), Else Kröner-Fresenius Symposia 2015, 5, 69-73, Karger Verlag, Basel
  
• Stem Cells in Adult Intestine
  Feng J, Sperka T
  In: Adult Stem Cells in Aging, Diseases and Cancer (edited by Rudolph KL), Else Kröner-Fresenius Symposia 2015, 5, 18-24, Karger Verlag, Basel
  
• Engineering a Constrained Peptidic Scaffold towards Potent and Selective Furin Inhibitors.
  Fittler H, Depp A, Avrutina O, Dahms SO, Than ME, Empting M, Kolmar H
  Chembiochem 2015, 16(17), 2441-4
  
• VEGFR2 Signaling Prevents Colorectal Cancer Cell Senescence to Promote Tumorigenesis in Mice with Colitis.
  Foersch S, Sperka T, Lindner C, Taut A, Rudolph KL, Breier G, Boxberger F, Rau TT, Hartmann A, Stürzl M, Wittkopf N, Haep L, Wirtz S, Neurath MF, Waldner MJ
  Gastroenterology 2015, 149(1), 177-89
  
• Conserved RNA secondary structures and long-range interactions in hepatitis C viruses.
  Fricke M, Dünnes N, Zayas M, Bartenschlager R, Niepmann M, Marz M
  RNA 2015, 21(7), 1219-32
  
• Extended pairwise local alignment of wild card DNA/RNA sequences using dynamic programming
  Fürstenberg A, Maucher M, Kestler HA
  J Stat Comput Sim 2015, 85(1), 3-13 published during change of institution
  
• Structural basis for assembly and function of the Nup82 complex in the nuclear pore scaffold.
  Gaik M, Flemming D, von Appen A, Kastritis P, Mücke N, Fischer J, Stelter P, Ori A, Bui KH, Baßler J, Barbar E, Beck M, Hurt E
  J Cell Biol 2015, 208(3), 283-97
  
• Snai1 represses Nanog to promote embryonic stem cell differentiation.
  Galvagni F, Neri F
  Genom Data 2015, 4, 82-3
  
• Snai1 promotes ESC exit from the pluripotency by direct repression of self-renewal genes.
  Galvagni* F, Lentucci* C, Neri* F, Dettori D, De Clemente C, Orlandini M, Anselmi F, Rapelli S, Grillo M, Borghi S, Oliviero S
  Stem Cells 2015, 33(3), 742-50 * equal contribution
  
• Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci.
  Gaulton KJ, Ferreira T, Lee Y, Raimondo A, Mägi R, Reschen ME, Mahajan A, Locke A, William Rayner N, Robertson N, Scott RA, Prokopenko I, Scott LJ, Green T, Sparso T, Thuillier D, Yengo L, Grallert H, Wahl S, Frånberg M, Strawbridge RJ, Kestler H, Chheda H, Eisele L, Gustafsson S, Steinthorsdottir V, Thorleifsson G, Qi L, Karssen LC, van Leeuwen EM, Willems SM, Li M, Chen H, Fuchsberger C, Kwan P, Ma C, Linderman M, Lu Y, Thomsen SK, Rundle JK, Beer NL, van de Bunt M, Chalisey A, Kang HM, Voight BF, Abecasis GR, Almgren P, Baldassarre D, Balkau B, Benediktsson R, Blüher M, Boeing H, Bonnycastle LL, Bottinger EP, Burtt NP, Carey J, Charpentier G, Chines PS, Cornelis MC, Couper DJ, Crenshaw AT, van Dam RM, Doney ASF, Dorkhan M, Edkins S, Eriksson JG, Esko T, Eury E, Fadista J, Flannick J, Fontanillas P, Fox C, Franks PW, Gertow K, Gieger C, Gigante B, Gottesman O, Grant GB, Grarup N, Groves CJ, Hassinen M, Have CT, Herder C, Holmen OL, Hreidarsson AB, Humphries SE, Hunter DJ, Jackson AU, Jonsson A, Jørgensen ME, Jørgensen T, Kao WHL, Kerrison ND, Kinnunen L, Klopp N, Kong A, Kovacs P, Kraft P, Kravic J, Langford C, Leander K, Liang L, Lichtner P, Lindgren CM, Lindholm E, Linneberg A, Liu CT, Lobbens S, Luan J, Lyssenko V, Männistö S, McLeod O, Meyer J, Mihailov E, Mirza G, Mühleisen TW, Müller-Nurasyid M, Navarro C, Nöthen MM, Oskolkov NN, Owen KR, Palli D, Pechlivanis S, Peltonen L, Perry JRB, Platou CGP, Roden M, Ruderfer D, Rybin D, van der Schouw YT, Sennblad B, Sigurðsson G, Stančáková A, Steinbach G, Storm P, Strauch K, Stringham HM, Sun Q, Thorand B, Tikkanen E, Tonjes A, Trakalo J, Tremoli E, Tuomi T, Wennauer R, Wiltshire S, Wood AR, Zeggini E, Dunham I, Birney E, Pasquali L, Ferrer J, Loos RJF, Dupuis J, Florez JC, Boerwinkle E, Pankow JS, van Duijn C, Sijbrands E, Meigs JB, Hu FB, Thorsteinsdottir U, Stefansson K, Lakka TA, Rauramaa R, Stumvoll M, Pedersen NL, Lind L, Keinanen-Kiukaanniemi SM, Korpi-Hyövälti E, Saaristo TE, Saltevo J, Kuusisto J, Laakso M, Metspalu A, Erbel R, Jöcke KH, Moebus S, Ripatti S, Salomaa V, Ingelsson E, Boehm BO, Bergman RN, Collins FS, Mohlke KL, Koistinen H, Tuomilehto J, Hveem K, Njølstad I, Deloukas P, Donnelly PJ, Frayling TM, Hattersley AT, de Faire U, Hamsten A, Illig T, Peters A, Cauchi S, Sladek R, Froguel P, Hansen T, Pedersen O, Morris AD, Palmer CNA, Kathiresan S, Melander O, Nilsson PM, Groop LC, Barroso I, Langenberg C, Wareham NJ, O'Callaghan CA, Gloyn AL, Altshuler D, Boehnke M, Teslovich TM, McCarthy MI, Morris AP, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
  Nat Genet 2015, 47(12), 1415-25
  
• Grundlagen der Durchflusszytometrie
  Gompf A
  In: Zelluläre Diagnostik und Therapie (edited by Sack U) 2015, 1-28, Walter de Gruyter GmbH, Be
  
• Predicting Variabilities in Cardiac Gene Expression with a Boolean Network Incorporating Uncertainty.
  Grieb M, Burkovski A, Sträng JE, Kraus JM, Groß A, Palm G, Kühl M, Kestler HA
  PLoS One 2015, 10(7), e0131832
  
• Novel Furin Inhibitors with Potent Anti-infectious Activity.
  Hardes K, Becker GL, Lu Y, Dahms SO, Köhler S, Beyer W, Sandvig K, Yamamoto H, Lindberg I, Walz L, von Messling V, Than ME, Garten W, Steinmetzer T
  ChemMedChem 2015, 10(7), 1218-31
  
• A platform for rapid exploration of aging and diseases in a naturally short-lived vertebrate.
  Harel I, Benayoun BA, Machado B, Singh PP, Hu CK, Pech MF, Valenzano DR, Zhang E, Sharp SC, Artandi SE, Brunet A
  Cell 2015, 160(5), 1013-26
  
• Core cross-linked nanogels based on the self-assembly of double hydrophilic poly(2-oxazoline) block copolymers
  Hartlieb M, Pretzel D, Wagner M, Hoeppener S, Bellstedt P, Görlach M, Englert C, Kempe K, Schubert US
  J Mater Chem B 2015, 3, 1748-59
  
• Plasma N-acetyl-glucosaminidase in advanced gastro-intestinal adenocarcinoma correlates with age, stage and outcome.
  Hartmann D, von Figura G, Song Z, Harden S, Scott LC, Evans TJ, Rudolph KL, Bilsland AE, Keith WN
  Future Oncol 2015, 11(2), 193-203
  
• Evolutionarily conserved signaling pathways: acting in the shadows of acute myelogenous leukemia's genetic diversity.
  Heidel FH, Arreba-Tutusaus P, Armstrong SA, Fischer T
  Clin Cancer Res 2015, 21(2), 240-8
  
• Site-specific methylation of Notch1 controls the amplitude and duration of the Notch1 response.
  Hein K, Mittler G, Cizelsky W, Kühl M, Ferrante F, Liefke R, Berger IM, Just S, Sträng JE, Kestler HA, Oswald F, Borggrefe T
  Sci Signal 2015, 8(369), ra30
  
• A simple data-adaptive probabilistic variant calling model.
  Hoffmann S, Stadler PF, Strimmer K
  Algorithms Mol Biol 2015, 10, 10
  
• High-throughput whole-genome sequencing of E14 mouse embryonic stem cells.
  Incarnato D, Neri F
  Genom Data 2015, 3, 6-7
  
• Exploring the physiology and pathology of aging in the intestine of Drosophila melanogaster.
  Jasper H
  Invertebr Reprod Dev 2015, 59(sup1), 51-8
  
• Proceedings of Reisensburg 2013 (Foreword).
  Kestler HA, Schmid M
  J Stat Comput Sim 2015, 85(1), 1-2
  
• Proteotoxic stress and ageing triggers the loss of redox homeostasis across cellular compartments.
  Kirstein** J, Morito D, Kakihana T, Sugihara M, Minnen A, Hipp MS, Nussbaum-Krammer C, Kasturi P, Hartl** FU, Nagata** K, Morimoto** RI
  EMBO J 2015, 34(18), 2334 ** co-corresponding authors
  
• Polyketide synthesis genes associated with toxin production in two species of Gambierdiscus (Dinophyceae).
  Kohli GS, John U, Figueroa RI, Rhodes LL, Harwood DT, Groth M, Bolch CJS, Murray SA
  BMC Genomics 2015, 16, 410
  
• NEMO Prevents Steatohepatitis and Hepatocellular Carcinoma by Inhibiting RIPK1 Kinase Activity-Mediated Hepatocyte Apoptosis.
  Kondylis V, Polykratis A, Ehlken H, Ochoa-Callejero L, Straub BK, Krishna-Subramanian S, Van TM, Curth HM, Heise N, Weih F, Klein U, Schirmacher P, Kelliher M, Pasparakis M
  Cancer Cell 2015, 28(5), 582-98
  
• Xlink Analyzer: software for analysis and visualization of cross-linking data in the context of three-dimensional structures.
  Kosinski J, von Appen A, Ori A, Karius K, Müller CW, Beck M
  J Struct Biol 2015, 189(3), 177-83
  
• Alternative Splicing of SMPD1 in Human Sepsis.
  Kramer M, Quickert S, Sponholz C, Menzel U, Huse K, Platzer M, Bauer M, Claus RA
  PLoS One 2015, 10(4), e0124503
  
• Exhaustive k-nearest-neighbour subspace clustering
  Krause JM, Lausser L, Kestler HA
  J Stat Comput Sim 2015, 85(1), 30–46 published during change of institution
  
• DNA methylome analysis in Burkitt and follicular lymphomas identifies differentially methylated regions linked to somatic mutation and transcriptional control.
  Kretzmer H, Bernhart SH, Wang W, Haake A, Weniger MA, Bergmann AK, Betts MJ, Carrillo-de-Santa-Pau E, Doose G, Gutwein J, Richter J, Hovestadt V, Huang B, Rico D, Jühling F, Kolarova J, Lu Q, Otto C, Wagener R, Arnolds J, Burkhardt B, Claviez A, Drexler HG, Eberth S, Eils R, Flicek P, Haas S, Humme M, Karsch D, Kerstens HHD, Klapper W, Kreuz M, Lawerenz C, Lenzek D, Loeffler M, López C, MacLeod RAF, Martens JHA, Kulis M, Martín-Subero JI, Möller P, Nage I, Picelli S, Vater I, Rohde M, Rosenstiel P, Rosolowski M, Russell RB, Schilhabel M, Schlesner M, Stadler PF, Szczepanowski M, Trümper L, Stunnenberg HG, Küppers R, Ammerpohl O, Lichter P, Siebert R, Hoffmann S, Radlwimmer B
  Nat Genet 2015, 47(11), 1316-25
  
• Survival of primary, but not of cancer cells after combined Plk1-HDAC inhibition.
  Lange L, Hemmerich P, Spänkuch B
  Oncotarget 2015, 6(28), 25801-14
  
• Defining the transcriptomic landscape of Candida glabrata by RNA-Seq.
  Linde J, Duggan S, Weber M, Horn F, Sieber P, Hellwig D, Riege K, Marz M, Martin R, Guthke R, Kurzai O
  Nucleic Acids Res 2015, 43(3), 1392-406
  
• Genomic and epigenomic co-evolution in follicular lymphomas.
  Loeffler M, Kreuz M, Haake A, Hasenclever D, Trautmann H, Arnold C, Winter K, Koch K, Klapper W, Scholtysik R, Rosolowski M, Hoffmann S, Ammerpohl O, Szczepanowski M, Herrmann D, Küppers R, Pott C, Siebert R, HaematoSys-Project
  Leukemia 2015, 29(2), 456-63
  
• Interventions to Slow Aging in Humans: Are We Ready?
  Longo VD, Antebi A, Bartke A, Barzilai N, Brown-Borg HM, Caruso C, Curiel TJ, de Cabo R, Franceschi C, Gems D, Ingram DK, Johnson TE, Kennedy BK, Kenyon C, Klein S, Kopchick JJ, Lepperdinger G, Madeo F, Mirisola MG, Mitchell JR, Passarino G, Rudolph KL, Sedivy JM, Shadel GS, Sinclair DA, Spindler SR, Suh Y, Vijg J, Vinciguerra M, Fontana L
  Aging Cell 2015, 14(4), 497-510
  
• Peptidomimetic furin inhibitor MI-701 in combination with oseltamivir and ribavirin efficiently blocks propagation of highly pathogenic avian influenza viruses and delays high level oseltamivir resistance in MDCK cells.
  Lu Y, Hardes K, Dahms SO, Böttcher-Friebertshäuser E, Steinmetzer T, Than ME, Klenk HD, Garten W
  Antiviral Res 2015, 120, 89-100
  
• Histone Deacetylase Inhibitors (HDACi) Cause the Selective Depletion of Bromodomain Containing Proteins (BCPs).
  Mackmull MT, Iskar M, Parca L, Singer S, Bork P, Ori** A, Beck** M
  Mol Cell Proteomics 2015, 14(5), 1350-60 ** co-corresponding authors
  
• Defective podocyte insulin signalling through p85-XBP1 promotes ATF6-dependent maladaptive ER-stress response in diabetic nephropathy.
  Madhusudhan T, Wang H, Dong W, Ghosh S, Bock F, Thangapandi VR, Ranjan S, Wolter J, Kohli S, Shahzad K, Heidel F, Krueger M, Schwenger V, Moeller MJ, Kalinski T, Reiser J, Chavakis T, Isermann B
  Nat Commun 2015, 6, 6496
  
• Effects of ebselen and N-acetyl cysteine on replicative aging of primary human fibroblast strains.
  Marthandan S
  Immun Ageing 2015, 12, 8
  
• Similarities in Gene Expression Profiles during In Vitro Aging of Primary Human Embryonic Lung and Foreskin Fibroblasts.
  Marthandan S, Priebe S, Baumgart M, Groth M, Cellerino A, Guthke R, Hemmerich P, Diekmann S
  Biomed Res Int 2015, 2015, 731938
  
• Hormetic effect of rotenone in primary human fibroblasts.
  Marthandan S, Priebe S, Groth M, Guthke R, Platzer M, Hemmerich P, Diekmann S
  Immun Ageing 2015, 12, 11
  
• MicroRNAs as biomarker of Parkinson disease? Small but mighty.
  Marz M, Ferracin M, Klein C
  Neurology 2015, 84(7), 636-8
  
• Glucocorticoid receptor regulates accurate chromosome segregation and is associated with malignancy.
  Matthews LC, Berry AA, Morgan DJ, Poolman TM, Bauer K, Kramer F, Spiller DG, Richardson RV, Chapman KE, Farrow SN, Norman MR, Williamson AJK, Whetton AD, Taylor SS, Tuckermann JP, White MRH, Ray DW
  Proc Natl Acad Sci U S A 2015, 112(17), 5479-84
  
• CCND1-CDK4-mediated cell cycle progression provides a competitive advantage for human hematopoietic stem cells in vivo.
  Mende N, Kuchen EE, Lesche M, Grinenko T, Kokkaliaris KD, Hanenberg H, Lindemann D, Dahl A, Platz A, Höfer T, Calegari F, Waskow C
  J Exp Med 2015, 212(8), 1171-83
  
• Comprehensive insights in the Mycobacterium avium subsp. paratuberculosis genome using new WGS data of sheep strain JIII-386 from Germany.
  Möbius P, Hölzer M, Felder M, Nordsiek G, Groth M, Köhler H, Reichwald K, Platzer M, Marz M
  Genome Biol Evol 2015, 7(9), 2585-601
  
• Mechanism of Functional Alterations in Hematopoietic Stem Cell Aging
  Morita Y
  In: Adult Stem Cells in Aging, Diseases and Cancer (edited by Rudolph KL), Else Kröner-Fresenius Symposia 2015, 5, 40-59, Karger Verlag, Basel
  
• Space constraints govern fate of hematopoietic stem and progenitor cells in vitro.
  Müller E, Grinenko T, Pompe T, Waskow C, Werner C
  Biomaterials 2015, 53, 709-15
  
• The function of embryonic stem cell-expressed Ras (E-Ras), a unique Ras family member, correlates with its additional motifs and its structural properties.
  Nakhaei-Rad S, Nakhaeizadeh H, Kordes C, Cirstea IC, Schmick M, Dvorsky R, Bastiaens PIH, Häussinger D, Ahmadian MR
  J Biol Chem 2015, 290(25), 15892-903
  
• Cooperative development of logical modelling standards and tools with CoLoMoTo.
  Naldi A, Monteiro PT, Müssel C, the Consortium for Logical Models and Tools, Kestler HA, Thieffry D, Xenarios I, Saez-Rodriguez J, Helikar T, Chaouiya C
  Bioinformatics 2015, 31(7), 1154-9
  
• TET1 is a tumour suppressor that inhibits colon cancer growth by derepressing inhibitors of the WNT pathway.
  Neri F, Dettori D, Incarnato D, Krepelova A, Rapelli S, Maldotti M, Parlato C, Paliogiannis P, Oliviero S
  Oncogene 2015, 34(32), 4168-76
  
• TET1 is controlled by pluripotency-associated factors in ESCs and downmodulated by PRC2 in differentiated cells and tissues.
  Neri F, Incarnato D, Krepelova A, Dettori D, Rapelli S, Maldotti M, Parlato C, Anselmi F, Galvagni F, Oliviero S
  Nucleic Acids Res 2015, 43(14), 6814-26
  
• DNA methylation and demethylation dynamics.
  Neri F, Incarnato D, Oliviero S
  Oncotarget 2015, 6(33), 34049-50
  
• Murine Embryonic Stem Cells Synthesize Retinoic Acid to Promote their Own Differentiation
  Neri* F, De Clemente* C, Orlandini M, Lentucci C, Anselmi F, Galvagni F
  J Stem Cell Res Ther 2015, 5(7), 293 * equal contribution
  
• Single-Base Resolution Analysis of 5-Formyl and 5-Carboxyl Cytosine Reveals Promoter DNA Methylation Dynamics.
  Neri* F, Incarnato* D, Krepelova A, Rapelli S, Anselmi F, Parlato C, Medana C, Dal Bello F, Oliviero S
  Cell Rep 2015, 10(5), 674–683 * equal contribution
  
• Of flies, mice, and men: evolutionarily conserved tissue damage responses and aging.
  Neves J, Demaria M, Campisi J, Jasper H
  Dev Cell 2015, 32(1), 9-18
  
• Crucial HSP70 co-chaperone complex unlocks metazoan protein disaggregation.
  Nillegoda NB, Kirstein J, Szlachcic A, Berynskyy M, Stank A, Stengel F, Arnsburg K, Gao X, Scior A, Aebersold R, Guilbride DL, Wade RC, Morimoto RI, Mayer MP, Bukau B
  Nature 2015, 524(7564), 247
  
• Stat5 gene dosage in T cells modulates CD8+ T-cell homeostasis and attenuates contact hypersensitivity response in mice.
  Nivarthi H, Prchal-Murphy M, Swoboda A, Hager M, Schlederer M, Kenner L, Tuckermann J, Sexl V, Moriggl R, Ermakova O
  Allergy 2015, 70(1), 67-79 published during change of institution
  
• Identification of ageing-associated naturally occurring peptides in human urine.
  Nkuipou-Kenfack E, Bhat A, Klein J, Jankowski V, Mullen W, Vlahou A, Dakna M, Koeck T, Schanstra JP, Zürbig P, Rudolph KL, Schumacher B, Pich A, Mischak H
  Oncotarget 2015, 6(33), 34106-17
  
• Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats
  Ori* A, Toyama* BH, Harris MS, Bock T, Iskar M, Bork P, Ingolia NT, Hetzer MW, Beck M
  Cell Syst 2015, 1(3), 224–237 * equal contribution, published during change of institution
  
• High levels of RAD51 perturb DNA replication elongation and cause unscheduled origin firing due to impaired CHK1 activation.
  Parplys AC, Seelbach JI, Becker S, Behr M, Jend C, Mansour WY, Joosse S, Stuerzbecher HW, Pospiech H, Petersen C, Dikomey E, Borgmann K
  Cell Cycle 2015, 14(19), 3190-202
  
• Distinct Intracellular Domain Substrate Modifications Selectively Regulate Ectodomain Cleavage of NRG1 or CD44
  Parra* LM, Hartmann* M, Schubach S, Li Y, Herrlich P, Herrlich A
  Mol Cell Biol 2015, 35(19), 3381-95 * equal contribution
  
• Deficiency of the protein-tyrosine phosphatase DEP-1/PTPRJ promotes matrix metalloproteinase-9 expression in meningioma cells.
  Petermann A, Stampnik Y, Cui Y, Morrison H, Pachow D, Kliese N, Mawrin C, Böhmer FD
  J Neurooncol 2015, 122(3), 451-9
  
• Characterization and quantification of proteins secreted by single human embryos prior to implantation.
  Poli* M, Ori* A, Child T, Jaroudi S, Spath K, Beck M, Wells D
  EMBO Mol Med 2015, 7(11), 1465-79 * equal contribution, published during change of institution
  
• Glandular ß-glucosidases in juvenile Chrysomelina leaf beetles support the evolution of a host-plant-dependent chemical defense.
  Rahfeld P, Haeger W, Kirsch R, Pauls G, Becker T, Schulze E, Wielsch N, Wang D, Groth M, Brandt W, Boland W, Burse A
  Insect Biochem Mol Biol 2015, 58, 28-38
  
• Turquoise killifish.
  Reichard M, Cellerino A, Valenzano DR
  Curr Biol 2015, 25(17), R741-2
  
• The deubiquitinating enzyme CYLD regulates the differentiation and maturation of thymic medullary epithelial cells.
  Reissig S, Hövelmeyer N, Tang Y, Weih D, Nikolaev A, Riemann M, Weih F, Waisman A
  Immunol Cell Biol 2015, 93(6), 558-66
  
• Blocking stroke-induced immunodeficiency increases CNS antigen-specific autoreactivity but does not worsen functional outcome after experimental stroke.
  Römer C, Engel O, Winek K, Hochmeister S, Zhang T, Royl G, Klehmet J, Dirnagl U, Meisel C, Meisel A
  J Neurosci 2015, 35(20), 7777-94
  
• The Epigenome of Schistosoma mansoni Provides Insight about How Cercariae Poise Transcription until Infection.
  Roquis D, Lepesant JMJ, Picard MAL, Freitag M, Parrinello H, Groth M, Emans R, Cosseau C, Grunau C
  PLoS Negl Trop Dis 2015, 9(8), e0003853
  
• Adult Stem Cells in Aging, Diseases and Cancer
  Rudolph KL (ed)
  Book series: Else Kröner-Fresenius Symposia 2015, 5, Karger Verlag, Basel, Switzerlan
  
• Loss of ATM accelerates pancreatic cancer formation and epithelial-mesenchymal transition.
  Russell R, Perkhofer L, Liebau S, Lin Q, Lechel A, Feld FM, Hessmann E, Gaedcke J, Güthle M, Zenke M, Hartmann D, von Figura G, Weissinger SE, Rudolph KL, Möller P, Lennerz JK, Seufferlein T, Wagner M, Kleger A
  Nat Commun 2015, 6, 7677
  
• Towards a comprehensive picture of alloacceptor tRNA remolding in metazoan mitochondrial genomes.
  Sahyoun AH, Hölzer M, Jühling F, Höner zu Siederdissen C, Al-Arab M, Tout K, Marz M, Middendorf M, Stadler PF, Bernt M
  Nucleic Acids Res 2015, 43(16), 8044-56
  
• Central Venous Catheter-Related Bloodstream Infections in Obese Hematologic Patients.
  Schalk E, Färber J, Fischer T, Heidel FH
  Infect Control Hosp Epidemiol 2015, 36(8), 995-6
  
• Prediction of central venous catheter-related bloodstream infections (CRBSIs) in patients with haematologic malignancies using a modified Infection Probability Score (mIPS).
  Schalk E, Hanus L, Färber J, Fischer T, Heidel FH
  Ann Hematol 2015, 94(9), 1451-6
  
• On the validity of time-dependent AUC estimators.
  Schmid M, Kestler HA, Potapov S
  Brief Bioinform 2015, 16(1), 153-68 published during change of institution
  
• Epo-induced erythroid maturation is dependent on Plcγ1 signaling.
  Schnöder TM, Arreba-Tutusaus P, Griehl I, Bullinger L, Buschbeck M, Lane SW, Döhner K, Plass C, Lipka DB, Heidel FH, Fischer T
  Cell Death Differ 2015, 22(6), 974-85
  
• Mast cell promotion of T cell-driven antigen-induced arthritis despite being dispensable for antibody-induced arthritis in which T cells are bypassed.
  Schubert N, Dudeck J, Liu P, Karutz A, Speier S, Maurer M, Tuckermann J, Dudeck A
  Arthritis Rheumatol 2015, 67(4), 903-13 published during change of institution
  
• High levels of TopBP1 induce ATR-dependent shut-down of rRNA transcription and nucleolar segregation.
  Sokka M, Rilla K, Miinalainen I, Pospiech H, Syväoja JE
  Nucleic Acids Res 2015, 43(10), 4975-89
  
• It's a bit over, is that ok? The subtle surplus from tandem alternative splicing.
  Szafranski K, Kramer M
  RNA BIOL 2015, 12(2), 115-22
  
• Sestrins in Aging and Metabolism
  Tang D, Tao S
  In: Adult Stem Cells in Aging, Diseases and Cancer (edited by Rudolph KL), Else Kröner-Fresenius Symposia 2015, 5, 60-65, Karger Verlag, Basel
  
• Internalization of near-infrared fluorescently labeled activatable cell-penetrating peptide and of proteins into human fibrosarcoma cell line HT-1080.
  Tansi F, Kallweit E, Kaether C, Kappe K, Schumann C, Hilger I, Reissmann S
  J Cell Biochem 2015, 116(7), 1222-31
  
• Left-right asymmetry in the light of TOR: An update on what we know so far.
  Tena TC, Burkhalter** MD, Philipp** M
  Biol Cell 2015, 107(9), 306-18 ** co-corresponding authors
  
• A Branch-and-Bound Approach for Tautomer Enumeration
  Thalheim T, Wagner B, Kühne R, Middendorf M, Schüürmann G
  Mol Inform 2015, 34, 263–75
  
• Analysis of Alpha-2 Macroglobulin from the Long-Lived and Cancer-Resistant Naked Mole-Rat and Human Plasma.
  Thieme R, Kurz S, Kolb M, Debebe T, Holtze S, Morhart M, Huse K, Szafranski K, Platzer M, Hildebrandt TB, Birkenmeier G
  PLoS One 2015, 10(6), e0130470
  
• The African Turquoise Killifish Genome Provides Insights into Evolution and Genetic Architecture of Lifespan.
  Valenzano DR, Benayoun BA, Singh PP, Zhang E, Etter PD, Hu CK, Clément-Ziza M, Willemsen D, Cui R, Harel I, Machado BE, Yee MC, Sharp SC, Bustamante CD, Beyer A, Johnson EA, Brunet A
  Cell 2015, 163(6), 1539-54
  
• A pooled analysis of overall survival in COMFORT-I and COMFORT-II, 2 randomized phase III trials of ruxolitinib for the treatment of myelofibrosis.
  Vannucchi AM, Kantarjian HM, Kiladjian JJ, Gotlib J, Cervantes F, Mesa RA, Sarlis NJ, Peng W, Sandor V, Gopalakrishna P, Hmissi A, Stalbovskaya V, Gupta V, Harrison C, Verstovsek S, COMFORT Investigators
  Haematologica 2015, 100(9), 1139-45
  
• Sputnik: Ad hoc distributed computation.
  Völkel G, Lausser L, Schmid F, Kraus JM, Kestler HA
  Bioinformatics 2015, 31(8), 1298-301
  
• In situ structural analysis of the human nuclear pore complex.
  von Appen A, Kosinski J, Sparks L, Ori A, DiGuilio AL, Vollmer B, Mackmull MT, Banterle N, Parca L, Kastritis P, Buczak K, Mosalaganti S, Hagen W, Andres-Pons A, Lemke EA, Bork P, Antonin W, Glavy JS, Bui KH, Beck M
  Nature 2015, 526(7571), 140-3 published during change of institution
  
• A MYC-Driven Change in Mitochondrial Dynamics Limits YAP/TAZ Function in Mammary Epithelial Cells and Breast Cancer.
  von Eyss B, Jaenicke LA, Kortlever RM, Royla N, Wiese KE, Letschert S, McDuffus LA, Sauer M, Rosenwald A, Evan GI, Kempa S, Eilers M
  Cancer Cell 2015, 28(6), 743-57
  
• The PCBP1 gene encoding poly(rC) binding protein I is recurrently mutated in Burkitt lymphoma.
  Wagener R, Aukema SM, Schlesner M, Haake A, Burkhardt B, Claviez A, Drexler HG, Hummel M, Kreuz M, Loeffler M, Rosolowski M, López C, Möller P, Richter J, Rohde M, Betts MJ, Russell RB, Bernhart SH, Hoffmann S, Rosenstiel P, Schilhabel M, Szczepanowski M, Trümper L, Klapper W, Siebert R, ICGC MMML-Seq-Project, "Molecular Mechanisms in Malignant Lymphomas" Network Project of the Deutsche Krebshilfe
  Genes Chromosomes Cancer 2015, 54(9), 555-64
  
• Sumoylation of HDAC2 promotes NF-κB-dependent gene expression.
  Wagner T, Kiweler N, Wolff K, Knauer SK, Brandl A, Hemmerich P, Dannenberg JH, Heinzel T, Schneider G, Krämer OH
  Oncotarget 2015, 6(9), 7123-35
  
• PERK Limits Drosophila Lifespan by Promoting Intestinal Stem Cell Proliferation in Response to ER Stress.
  Wang L, Ryoo HD, Qi Y, Jasper H
  PLoS Genet 2015, 11(5), e1005220
  
• Structure and regulatory role of the C-terminal winged helix domain of the archaeal minichromosome maintenance complex.
  Wiedemann C, Szambowska A, Häfner S, Ohlenschläger O, Gührs KH, Görlach M
  Nucleic Acids Res 2015, 43(5), 2958-67
  
• Repression of SRF target genes is critical for Myc-dependent apoptosis of epithelial cells.
  Wiese* KE, Haikala* HM, von Eyss* B, Wolf E, Esnault C, Rosenwald A, Treisman R, Klefström J, Eilers M
  EMBO J 2015, 34(11), 1554-71 * equal contribution
  
• Generation of Aorta Transcript Atlases of Wild-Type and Apolipoprotein E-null Mice by Laser Capture Microdissection-Based mRNA Expression Microarrays.
  Yin C, Mohanta S, Ma Z, Weber C, Hu D, Weih F, Habenicht A
  Methods Mol Biol 2015, 1339, 297-308
  
• Inhibition of Wild-type p53-induced phosphatase 1 promotes liver regeneration in mice by direct activation of mTOR.
  Zhang L, Liu L, He Z, Li G, Liu J, Song Z, Jin H, Rudolph KL, Yang H, Mao Y, Zhang L, Zhang H, Xiao Z, Ju Z
  Hepatology 2015, 61(6), 2030-41
  
• Merlin's wizardry guides cohesive migration.
  Zoch A, Morrison H
  Nat Cell Biol 2015, 17(3), 212-3
  

Publications 2014:

• A sequence-ready physical map of barley anchored genetically by two million single-nucleotide polymorphisms.
  Ariyadasa R, Mascher M, Nussbaumer T, Schulte D, Frenkel Z, Poursarebani N, Zhou R, Steuernagel B, Gundlach H, Taudien S, Felder M, Platzer M, Himmelbach A, Schmutzer T, Hedley P, Muehlbauer G, Scholz U, Korol A, Mayer K, Waugh R, Langridge P, Graner A, Stein N
  Plant Physiol 2014, 164(1), 412-23
  
• Interrelation between protein synthesis, proteostasis and life span.
  Arnsburg K, Kirstein-Miles J
  Curr Genomics 2014, 15(1), 66
  
• HSP90 supports tumor growth and angiogenesis through PRKD2 protein stabilization.
  Azoitei N, Diepold K, Brunner C, Rouhi A, Genze F, Becher A, Kestler H, van Lint J, Chiosis G, Koren J, Fröhling S, Scholl C, Seufferlein T
  Cancer Res 2014, 74(23), 7125-36 published during change of institution
  
• Transcriptomic immune response of the cotton stainer Dysdercus fasciatus to experimental elimination of vitamin-supplementing intestinal symbionts.
  Bauer E, Salem H, Marz M, Vogel H, Kaltenpoth M
  PLoS One 2014, 9(12), e114865
  
• RNA-seq of the aging brain in the short-lived fish N. furzeri - conserved pathways and novel genes associated with neurogenesis.
  Baumgart* M, Groth* M, Priebe* S, Savino A, Testa G, Dix A, Ripa R, Spallotta F, Gaetano C, Ori M, Terzibasi Tozzini E, Guthke R, Platzer M, Cellerino A
  Aging Cell 2014, 13(6), 965-74 * equal contribution
  
• Explorative Analysis of Heterogeneous, Unstructured, and Uncertain Data: A Computer Science Perspective on Biodiversity Research
  Beckstein C, Böcker S, Bogdan M, Bücker HM.Bruelheide H, Denzler J, Dittrich P, Grosse I, Hinneburg A, König-Ries B, Löffler F, Marz M, Müller-Hannemann M, Winter M, Zimmermann W
  In: Proceedings of 3rd International Conference on Data Management Technologies and Applications (DATA-2014) 2014, 251-257, Science and Technology
  
• Impact of genomic damage and ageing on stem cell function.
  Behrens A, van Deursen JM, Rudolph* KL, Schumacher B
  Nat Cell Biol 2014, 16(3), 201-7 * corresponding author, based on the Else Kröner-Fresenius-Symposium in Molecular Medicine
  
• Analysis of disorder in tricalcium silicate by 29Si NMR spectroscopy and additional methods
  Bellmann F, Leppert J, Görlach M, Krbetschek M, Damidot D, Ludwig HM
  Cement Concrete Res 2014, 57, 105-16
  
• Wnt7a stimulates myogenic stem cell motility and engraftment resulting in improved muscle strength.
  Bentzinger* CF, von Maltzahn* J, Dumont NA, Stark DA, Wang YX, Nhan K, Frenette J, Cornelison DDW, Rudnicki MA
  J Cell Biol 2014, 205(1), 97-111 * equal contribution, published during change of institution
  
• Slit/Robo signaling regulates cell fate decisions in the intestinal stem cell lineage of Drosophila.
  Biteau B, Jasper H
  Cell Rep 2014, 7(6), 1867-75
  
• Chlamydia psittaci inclusion membrane protein IncB associates with host protein Snapin.
  Böcker S, Heurich A, Franke C, Monajembashi S, Sachse K, Saluz HP, Hänel F
  Int J Med Microbiol 2014, 304(5-6), 542-53
  
• Kinesin-dependent motility generation as target mechanism of cadmium intoxication.
  Böhm KJ
  Toxicol Lett 2014, 224(3), 356-61
  
• Novel Insights into Structure and Function of Factor XIIIa-Inhibitor Tridegin.
  Böhm M, Bäuml CA, Hardes K, Steinmetzer T, Roeser D, Schaub Y, Than ME, Biswas A, Imhof D
  J Med Chem 2014, 57(24), 10355-65
  
• The Wilms' tumor suppressor WT1 enhances CD95L expression and promotes activation-induced cell death in leukemic T cells.
  Bourkoula K, Englert C, Giaisi M, Koehler R, Krammer PH, Li-Weber M
  Int J Cancer 2014, 134(2), 291-300
  
• A 'telomere-associated secretory phenotype' cooperates with BCR-ABL to drive malignant proliferation of leukemic cells.
  Braig M, Pällmann N, Preukschas M, Steinemann D, Hofmann W, Gompf A, Streichert T, Braunschweig T, Copland M, Rudolph KL, Bokemeyer C, Koschmieder S, Schuppert A, Balabanov S, Brümmendorf TH
  Leukemia 2014, 28(10), 2028-39
  
• Telomerase inhibition effectively targets mouse and human AML stem cells and delays relapse following chemotherapy.
  Bruedigam C, Bagger FO, Heidel FH, Paine Kuhn C, Guignes S, Song A, Austin R, Vu T, Lee E, Riyat S, Moore AS, Lock RB, Bullinger L, Hill GR, Armstrong SA, Williams DA, Lane SW
  Cell Stem Cell 2014, 15(6), 775-90
  
• Lin28a - boost your energy for youthful regeneration.
  Burkhalter MD, Morita Y, Rudolph KL
  EMBO J 2014, 33(1), 5–6
  
• Control of metabolic adaptation to fasting by dILP6-induced insulin signaling in Drosophila oenocytes.
  Chatterjee D, Katewa SD, Qi Y, Jackson SA, Kapahi P, Jasper H
  Proc Natl Acad Sci U S A 2014, 111(50), 17959-64
  
• Gadd45a Regulates Hematopoietic Stem Cell Stress Responses in Mice.
  Chen Y, Ma X, Zhang M, Wang X, Wang C, Wang H, Guo P, Yuan W, Rudolph KL, Zhan Q, Ju Z
  Blood 2014, 123(6), 851-62
  
• Gender identity rather than sexual orientation impacts on facial preferences.
  Ciocca G, Limoncin E, Cellerino A, Fisher AD, Gravina GL, Carosa E, Mollaioli D, Valenzano DR, Mennucci A, Bandini E, Di Stasi SM, Maggi M, Lenzi A, Jannini EA
  J Sex Med 2014, 11(10), 2500-7
  
• Telomeres, oxidative stress and inflammatory factors: partners in cellular senescence?
  Correia-Melo C, Hewitt G, Passos JF
  Longev Healthspan 2014, 3(1), 1
  
• Kit regulates HSC engraftment across the human-mouse species barrier.
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• Nerve growth factor in the adult brain of a teleostean model for aging research: Nothobranchius furzeri.
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• Brain derived neurotrophic factor: mRNA expression and protein distribution in the brain of the teleost Nothobranchius furzeri.
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• Biomolecular dynamics and binding studies in the living cell.
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• Transition to annual life history coincides with reduction in cell cycle speed during early cleavage in three independent clades of annual killifish.
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• Expression of the lymphoid enhancer factor 1 is required for normal hematopoietic stem and progenitor cell function.
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• The deubiquitinating enzyme CYLD controls apical docking of basal bodies in ciliated epithelial cells.
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• Systemic DNA damage responses: organismal adaptations to genome instability.
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• Insights from the worm: the C. elegans model for innate immunity.
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• Functional Mutation Analysis Provides Evidence for a Role of REEP1 in Lipid Droplet Biology.
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• Hypoxia controls Flvcr1 gene expression in Caco2 cells through HIF2α and ETS1.
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• Activating mutations in RRAS underlie a phenotype within the RASopathy spectrum and contribute to leukaemogenesis.
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• Brain derived neurotrophic factor in the retina of the teleost N. furzeri.
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• The Genome of the Foraminiferan Reticulomyxa filosa.
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• Clonal expansion capacity defines two consecutive developmental stages of long-term hematopoietic stem cells.
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• The genome of an influenza virus from a pilot whale: Relation to influenza viruses of gulls and marine mammals.
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• Transkriptom-Sequenzierung in der Alternsforschung
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• PGRP-SC2 promotes gut immune homeostasis to limit commensal dysbiosis and extend lifespan.
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• Manganese-Enhanced MRI: In Vivo Imaging of CNS Anatomy, Fiber Connectivity and Functional Activity
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• Studying aging in Drosophila.
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• A multi-split mapping algorithm for circular RNA, splicing, trans-splicing and fusion detection.
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• AgeFactDB – The JenAge Ageing Factor Database – Towards data integration in ageing research
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• Telomerase exerts physiological and tumor promoting functions by stimulating ribosomal biogenesis
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• Mutation in ST6GALNAC5 identified in family with coronary artery disease.
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• High-throughput single nucleotide variant discovery in E14 mouse embryonic stem cells provides a new reference genome assembly.
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• Genome-wide profiling of mouse RNA secondary structures reveals key features of the mammalian transcriptome.
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• Functional crosstalk between Ras and Rho pathways: p120RasGAP competitively inhibits the RhoGAP activity of Deleted in Liver Cancer (DLC) tumor suppressors by masking its catalytic arginine finger.
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• Mitochondrial proteostasis in the control of aging and longevity.
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• Chronic inflammation induces telomere dysfunction and accelerates ageing in mice.
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• Telomere shortening in leukocyte subpopulations in depression.
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• Sensory neuropathy with bone destruction due to a mutation in the membrane-shaping atlastin GTPase 3.
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• Myc and max genome-wide binding sites analysis links the Myc regulatory network with the polycomb and the core pluripotency networks in mouse embryonic stem cells.
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• The origin of the European avian-like swine influenza viruses.
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• Virus isolate from carp: genetic characterisation reveals a novel picornavirus with two aphthovirus 2A-like sequences.
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• Circulation of classical swine influenza virus in Europe between the wars?
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• Enhanced Telomere Rejuvenation in Pluripotent Cells Reprogrammed via Nuclear Transfer Relative to Induced Pluripotent Stem Cells.
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• Genomewide comparison and novel ncRNAs of Aquificales.
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• Suppression of the DHX9 helicase induces premature senescence in human diploid fibroblasts in a p53-dependent manner.
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• Mutations in SPRTN cause early onset hepatocellular carcinoma, genomic instability and progeroid features.
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• RNA structure analysis of alphacoronavirus terminal genome regions.
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• p21 promotes sustained liver regeneration and hepatocarcinogenesis in chronic cholestatic liver injury.
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• SENIEUR status of the originating cell donor negates certain 'anti-immunosenescence' effects of ebselen and N-acetyl cysteine in human T cell clone cultures.
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• Challenges in RNA virus bioinformatics.
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• Novel Zinc-binding Site in the E2 Domain Regulates Amyloid Precursor-like Protein 1 (APLP1) Oligomerization.
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• Glucose substitution prolongs maintenance of energy homeostasis and lifespan of telomere dysfunctional mice.
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  Nat Commun 2014, 5, 4924
  
• Osteoblast-derived WNT16 represses osteoclastogenesis and prevents cortical bone fragility fractures.
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• DAF-16/FOXO and EGL-27/GATA promote developmental growth in response to persistent somatic DNA damage.
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• Expression pattern of thyroid hormone transporters in the postnatal mouse brain.
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• Atypical RNAs in the coelacanth transcriptome.
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• Measuring telomere length and telomere dynamics in evolutionary biology and ecology
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• Substantial telomere shortening in the substantia nigra of telomerase-deficient mice does not increase susceptibility to MPTP-induced dopamine depletion.
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  Neuroreport 2014, 25(5), 335-9 published during change of institution
  
• Häm und seine Abbauprodukte
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• The use of targeted proteomics to determine the stoichiometry of large macromolecular assemblies.
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• Lacking alignments? The next-generation sequencing mapper segemehl revisited.
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  Bioinformatics 2014, 30(13), 1837-43
  
• Association of condensin with chromosomes depends on DNA binding by its HEAT-repeat subunits.
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• Requirement for CDK6 in MLL-rearranged acute myeloid leukemia.
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• Inhibition of JAK-STAT signaling stimulates adult satellite cell function.
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• The Ca2+ sensor protein swiprosin-1/EFhd2 is present in neurites and involved in kinesin-mediated transport in neurons.
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• Graph-distance distribution of the Boltzmann ensemble of RNA secondary structures.
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• Independently recruited oxidases from the glucose-methanol-choline oxidoreductase family enabled chemical defences in leaf beetle larvae (subtribe Chrysomelina) to evolve.
  Rahfeld P, Kirsch R, Kugel S, Wielsch N, Stock M, Groth M, Boland W, Burse A
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• The Comet-Fish technique, a tool for detection of specific DNA damage and repair
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• A first glimpse at the genome of the Baikalian amphipod Eulimnogammarus verrucosus.
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• Novel mechanism of JNK pathway activation by adenoviral E1A.
  Romanov* VS, Brichkina* AI, Morrison H, Pospelova TV, Pospelov VA, Herrlich P
  Oncotarget 2014, 5(8), 2176-86 * equal contribution
  
• Crystal structure of the antimicrobial peptidase lysostaphin from Staphylococcus simulans.
  Sabala I, Jagielska E, Bardelang PT, Czapinska H, Dahms SO, Sharpe JA, James R, Than ME, Thomas NR, Bochtler M
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• Evidence for the existence of two new members of the family Chlamydiaceae and proposal of Chlamydia avium sp. nov. and Chlamydia gallinacea sp. nov.
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• Vitamin supplementation by gut symbionts ensures metabolic homeostasis in an insect host.
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• Miz1 deficiency in the mammary gland causes a lactation defect by attenuated Stat5 expression and phosphorylation.
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• Germ and hematology: underlying disease influences diversity of germ spectra and antibiotic therapy.
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• Targeting V-ATPase in primary human monocytes by archazolid potently represses the classical secretion of cytokines due to accumulation at the endoplasmic reticulum.
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• Exon 11 skipping of SCN10A coding for voltage-gated sodium channels in dorsal root ganglia.
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• Linear Contrast Classifiers in High-Dimensional Spaces
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• Biosimilar G-CSF Based Mobilization of Peripheral Blood Hematopoietic Stem Cells for Autologous and Allogeneic Stem Cell Transplantation.
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• Gene expansion shapes genome architecture in the human pathogen Lichtheimia corymbifera: an evolutionary genomics analysis in the ancient terrestrial mucorales (Mucoromycotina).
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• Epithelial regeneration and cancer: news from the Src front.
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• Integrin αvβ3 and thyroid hormones promote expansion of progenitors in embryonic neocortex.
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• Tissue-Specific Transcript Profiling for ABC Transporters in the Sequestering Larvae of the Phytophagous Leaf Beetle Chrysomela populi.
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• Physiological state co-regulates thousands of mammalian mRNA splicing events at tandem splice sites and alternative exons.
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• DNA binding properties of human Cdc45 suggest a function as molecular wedge for DNA unwinding.
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• RelB-induced expression of Cot, a MAP3K, rescues RANKL-induced osteoclastogenesis in alymphoplasia mice by promoting NF-κB2 processing by IKKα
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• Narrowing down the distal border of the copy number variable beta-defensin gene cluster on human 8p23.
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• Regulation of microRNA expression in the neuronal stem cell niches during aging of the short-lived annual fish Nothobranchius furzeri.
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• Comparative analysis of mitochondrial genomes from closely related Rhynchosporium species reveals extensive intron invasion.
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• Aging stem cells: transcriptome meets epigenome meets methylome.
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• Characterisation of the interaction of neuropilin-1 with heparin and a heparan sulfate mimetic library of heparin-derived sugars.
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• Gap-directed translesion DNA synthesis of an abasic site on circular DNA templates by a human replication complex.
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• Activation and repression by oncogenic MYC shape tumour-specific gene expression profiles.
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• Senescence and apoptosis block hematopoietic activation of quiescent hematopoietic stem cells with short telomeres.
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• Promoting longevity by maintaining metabolic and proliferative homeostasis.
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• Integration of UPRER and oxidative stress signaling in the control of intestinal stem cell proliferation.
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• A coimmunization vaccine of Aβ42 ameliorates cognitive deficits without brain inflammation in an Alzheimer's disease model.
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• The fidelity of the ligation step determines how ends are resolved during nonhomologous end joining.
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