Epigenetics @HelmholtzMunich
Dozens of researchers at Helmholtz Munich joined forces
to reveal the myriad of secrets of Epigenetics.
The Epigenetics@HelmholtzMunich Community Research consists of almost 30 labs from 17 Helmholtz Munich institutes, committed all to performing ground-breaking research in the field of epigenetics. These groups are pioneers in their respective disciplines, utilizing cutting edge techniques to answer the complex questions of today.
The topics studied by the community include: stem cells, cellular plasticity, metabolism, diabetes, computational biology, epidemiology, immunology, development and systems biology.
Dozens of researchers @Helmholtz Munich join forces to reveal the myriad of secrets of Epigenetics.
Learn more about us below.
Our Groups
Epigenetics Events
EpiCrossBorders
International Helmholtz-Edinburgh Research School for EpigeneticsRecent Publications
Back2025 Scientific Article in Diabetes, Obesity and Metabolism Diabetes Obes. Metab. 27, 338–347 (2025)
Dong, Q. ; Xi, Y. ; Brandmaier, S. ; Fuchs, M. ; Huemer, M.-T. ; Waldenberger, M. ; Niu, J. ; Herder, C. ; Rathmann, W. ; Roden, M. ; Koenig, W. ; Bönhof, G.J. ; Gieger, C. ; Thorand, B. ; Peters, A. ; Rospleszcz, S. ; Grallert, H.
Subphenotypes of adult-onset diabetes: Data-driven clustering in the population-based KORA cohort.
2024 Meeting abstract in Neuroscience Applied Neurosci. App. 3, 1:104036 (2024)
Schmidt, S. ; Luecken, M. ; Theis, F.J. ; Weisenhorn, D.M. ; Wurst, W.
Molecular mechanisms underlying the onset of metabolic deficits in sporadic Parkinson’s disease.
2024Vortrag: ICLR 2024 Workshops (2024)
Hajiramezanali, E. ; Bunne, C. ; Hasanzadeh, A. ; Biancalani, T. ; Nguyen, E. ; Jin, Y. ; Brbic, M. ; Regev, A. ; Theis, F.J.
Machine learning for genomics explorations.
2024 Scientific Article in Nature machine intelligence Nat. Mach. Intell., DOI: 10.1038/s42256-024-00934-3 (2024)
Richter, T. ; Bahrami, M. ; Xia, Y. ; Fischer, D.S. ; Theis, F.J.
Delineating the effective use of self-supervised learning in single-cell genomics.
2024 Scientific Article in Genome Biology Genome Biol. 25:319 (2024)
Hains, A.E. ; Chetal, K. ; Nakatani, T. ; Marques, J.G. ; Ettinger, A. ; Junior, C.A.O.B. ; Gonzalez-Sandoval, A. ; Pillai, R. ; Filbin, M.G. ; Torres-Padilla, M.E. ; Sadreyev, R.I. ; Van Rechem, C.
Multi-omics approaches reveal that diffuse midline gliomas present altered DNA replication and are susceptible to replication stress therapy.
2024 Review in Nature Nature 633, 47-57 (2024)
IGVF Affiliate Member Projects (Heinig, M.)
Deciphering the impact of genomic variation on function.
2024 Nature Neuroscience Nat. Neurosci., DOI: 10.1038/s41593-024-01858-2 (2024)
Bonev, B. ; Castelo-Branco, G. ; Chen, F. ; Codeluppi, S. ; Corces, M.R. ; Fan, J. ; Heiman, M. ; Harris, K. ; Inoue, F. ; Kellis, M. ; Levine, A.P. ; Lotfollahi, M. ; Luo, C. ; Maynard, K.R. ; Nitzan, M. ; Ramani, V. ; Satijia, R. ; Schirmer, L. ; Shen, Y. ; Sun, N. ; Green, G.S. ; Theis, F. ; Wang, X. ; Welch, J.D. ; Gokce, O. ; Konopka, G. ; Liddelow, S.A. ; Macosko, E. ; Ali Bayraktar, O. ; Habib, N. ; Nowakowski, T.J.
Author Correction: Opportunities and challenges of single-cell and spatially resolved genomics methods for neuroscience discovery.
2024 Scientific Article in Communications Medicine Commun. Med. 4:265 (2024)
Nguyen, B.H.P. ; Garger, D. ; Lu, D. ; Maalmi, H. ; Prokisch, H. ; Thorand, B. ; Adamski, J. ; Kastenmüller, G. ; Waldenberger, M. ; Gieger, C. ; Peters, A. ; Suhre, K. ; Bönhof, G.J. ; Rathmann, W. ; Roden, M. ; Grallert, H. ; Ziegler, D. ; Herder, C. ; Menden, M.P.
Interpretable multimodal machine learning (IMML) framework reveals pathological signatures of distal sensorimotor polyneuropathy.
2024 Scientific Article in Nucleic Acids Research Nucleic Acids Res., DOI: 10.1093/nar/gkae1203 (2024)
Luzak, V. ; Osses, E. ; Danese, A. ; Odendaal, C. ; Cosentino, R.O. ; Stricker, S.H. ; Haanstra, J.R. ; Erhard, F. ; Siegel, T.N.
SLAM-seq reveals independent contributions of RNA processing and stability to gene expression in African trypanosomes.
2024 Review in Cell Cell 187, 7045-7063 (2024)
Bunne, C. ; Roohani, Y. ; Rosen, Y. ; Gupta, A. ; Zhang, X. ; Roed, M. ; Alexandrov, T. ; AlQuraishi, M. ; Brennan, P. ; Burkhardt, D.B. ; Califano, A. ; Cool, J. ; Dernburg, A.F. ; Ewing, K. ; Fox, E.B. ; Haury, M. ; Herr, A.E. ; Horvitz, E. ; Hsu, P.D. ; Jain, V. ; Johnson, G.R. ; Kalil, T. ; Kelley, D.R. ; Kelley, S.O. ; Kreshuk, A. ; Mitchison, T. ; Otte, S. ; Shendure, J. ; Sofroniew, N.J. ; Theis, F.J. ; Theodoris, C.V. ; Upadhyayula, S. ; Valer, M. ; Wang, B. ; Xing, E. ; Yeung-Levy, S. ; Zitnik, M. ; Karaletsos, T. ; Regev, A. ; Lundberg, E. ; Leskovec, J. ; Quake, S.R.
How to build the virtual cell with artificial intelligence: Priorities and opportunities.
2024 Review in Nature Methods Nat. Methods, DOI: 10.1038/s41592-024-02532-y (2024)
Hrovatin, K. ; Sikkema, L. ; Shitov, V.A. ; Heimberg, G. ; Shulman, M. ; Oliver, A.J. ; Müller, M. ; Ibarra Del Rio, I.A. ; Wang, H. ; Ramirez Suastegui, C. ; He, P. ; Schaar, A. ; Teichmann, S.A. ; Theis, F.J. ; Luecken, M.
Considerations for building and using integrated single-cell atlases.
2024 Nature Nature, DOI: 10.1038/s41586-024-08482-x (2024)
He, Z. ; Dony, L. ; Fleck, J.S. ; Szałata, A. ; Li, K. ; Slišković, I. ; Lin, H.C. ; Santel, M. ; Atamian, A. ; Quadrato, G. ; Sun, J. ; Pașca, S.P. ; Camp, J.G. ; Theis, F.J. ; Treutlein, B.
Publisher Correction: An integrated transcriptomic cell atlas of human neural organoids.
2024 Editorial in Breathe Breathe 20:240056 (2024)
McClean, M. ; Panciu, T.C. ; Lange, C. ; Duarte, R.G. ; Theis, F.J.
Artificial intelligence in tuberculosis: A new ally in disease control.
2024 Scientific Article in Nature biomedical engineering Nat. Bio. Eng., DOI: 10.1038/s41551-024-01273-9 (2024)
Papargyriou, A. ; Najajreh, M. ; Cook, D.P. ; Maurer, C.H. ; Bärthel, S. ; Messal, H.A. ; Ravichandran, S.K. ; Richter, T. ; Knolle, M. ; Metzler, T. ; Shastri, A.R. ; Öllinger, R. ; Jasper, J. ; Schmidleitner, L. ; Wang, S. ; Schneeweis, C. ; Ishikawa-Ankerhold, H. ; Engleitner, T. ; Mataite, L. ; Semina, M. ; Trabulssi, H. ; Lange, S. ; Ravichandra, A. ; Schuster, M. ; Mueller, S. ; Peschke, K. ; Schäfer, A. ; Dobiasch, S. ; Combs, S.E. ; Schmid, R.M. ; Bausch, A.R. ; Braren, R. ; Heid, I. ; Scheel, C. ; Schneider, G. ; Zeigerer, A. ; Luecken, M. ; Steiger, K. ; Kaissis, G. ; van Rheenen, J. ; Theis, F.J. ; Saur, D. ; Rad, R. ; Reichert, M.
Heterogeneity-driven phenotypic plasticity and treatment response in branched-organoid models of pancreatic ductal adenocarcinoma.
2024 Scientific Article in Nature Methods Nat. Methods, DOI: 10.1038/s41592-024-02555-5 (2024)
Caporale, N. ; Castaldi, D. ; Rigoli, M.T. ; Cheroni, C. ; Valenti, A. ; Stucchi, S. ; Lessi, M. ; Bulgheresi, D. ; Trattaro, S. ; Pezzali, M. ; Vitriolo, A. ; Lopez-Tobon, A. ; Bonfanti, M. ; Ricca, D. ; Schmid, K. ; Heinig, M. ; Theis, F.J. ; Villa, C.E. ; Testa, G.
Multiplexing cortical brain organoids for the longitudinal dissection of developmental traits at single-cell resolution.
2024 Scientific Article in Cancer Research Cancer Res., DOI: 10.1158/0008-5472.CAN-24-0456 (2024)
Turnham, R.E. ; Pitea, A. ; Jang, G.M. ; Xu, Z. ; Lim, H.C. ; Choi, A.L. ; Von Dollen, J. ; Levin, R.S. ; Webber, J.T. ; McCarthy, E. ; Hu, J. ; Li, X. ; Che, L. ; Singh, A. ; Yoon, A.J. ; Chan, G. ; Kelley, R.K. ; Swaney, D.L. ; Zhang, W. ; Bandyopadhyay, S. ; Theis, F.J. ; Eckhardt, M. ; Chen, X. ; Shokat, K.M. ; Ideker, T. ; Krogan, N.J. ; Gordan, J.D.
HBV remodels PP2A complexes to rewire kinase signaling in hepatocellular carcinoma.
2024 Scientific Article in Cell Reports Medicine Cell Rep. Med. 5:101846 (2024)
Ursch, L.T. ; Müschen, J.S. ; Ritter, J. ; Klermund, J. ; Bernard, B.E. ; Kolb, S. ; Warmuth, L. ; Andrieux, G. ; Miller, G. ; Jiménez-Muñoz, M. ; Theis, F.J. ; Boerries, M. ; Busch, D.H. ; Cathomen, T. ; Schumann, K.
Modulation of TCR stimulation and pifithrin-α improves the genomic safety profile of CRISPR-engineered human T cells.
2024 Review in Nature Neuroscience Nat. Neurosci. 27, 2292-2309 (2024)
Bonev, B. ; Gonçalo, C.B. ; Chen, F. ; Codeluppi, S. ; Corces, M.R. ; Fan, J. ; Heiman, M. ; Harris, K. ; Inoue, F. ; Kellis, M. ; Levine, A.P. ; Lotfollahi, M. ; Luo, C. ; Maynard, K.R. ; Nitzan, M. ; Ramani, V. ; Satijia, R. ; Schirmer, L. ; Shen, Y. ; Sun, N. ; Green, G.S. ; Theis, F. ; Wang, X. ; Welch, J.D. ; Gokce, O. ; Konopka, G. ; Liddelow, S.A. ; Macosko, E. ; Bayraktar, O. ; Habib, N. ; Nowakowski, T.J.