Publications

Groups

Year

Paper

2024

Targeting T cell plasticity in kidney and gut inflammation by pooled single-cell CRISPR screening
Leon U B Enk, Malte Hellmig, Kristoffer Riecken, Christoph Kilian, Paul Datlinger, Saskia L Jauch-Speer, Tobias Neben, Zeba Sultana, Varshi Sivayoganathan, Alina Borchers, Hans-Joachim Paust, Yu Zhao, Nariaki Asada, Shuya Liu, Theodora Agalioti, Penelope Pelczar, Thorsten Wiech, Christoph Bock, Tobias B Huber, Samuel Huber, Stefan Bonn, Nicola Gagliani, Boris Fehse, Ulf Panzer, Christian F Krebs.
Sci Immunol. 2024 Jun 14;9(96):eadd6774. doi: 10.1126/sciimmunol.add6774. Epub 2024 Jun 14.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38875317/

2024

Mapping the brain's gene-regulatory maze
Gaia Novarino, Christoph Bock.
Science. 2024 May 24;384(6698):860-861. doi: 10.1126/science.adp4663. Epub 2024 May 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38781359/

2024

JAK-STAT signaling maintains homeostasis in T cells and macrophages
Nikolaus Fortelny, Matthias Farlik, Victoria Fife, Anna-Dorothea Gorki, Caroline Lassnig, Barbara Maurer, Katrin Meissl, Marlies Dolezal, Laura Boccuni, Aarathy Ravi Sundar Jose Geetha, Mojoyinola Joanna Akagha, Anzhelika Karjalainen, Stephen Shoebridge, Asma Farhat, Ulrike Mann, Rohit Jain, Shweta Tikoo, Nina Zila, Wolfgang Esser-Skala, Thomas Krausgruber, Katarzyna Sitnik, Thomas Penz, Anastasiya Hladik, Tobias Suske, Sophie Zahalka, Martin Senekowitsch, Daniele Barreca, Florian Halbritter, Sabine Macho-Maschler, Wolfgang Weninger, Heidi A Neubauer, Richard Moriggl, Sylvia Knapp, Veronika Sexl, Birgit Strobl, Thomas Decker, Mathias Müller, Christoph Bock.
Nat Immunol. 2024 May;25(5):847-859. doi: 10.1038/s41590-024-01804-1. Epub 2024 Apr 24.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38658806/

2024

Hyperactive STAT5 hijacks T cell receptor signaling and drives immature T cell acute lymphoblastic leukemia
Tobias Suske, Helena Sorger, Gabriele Manhart, Frank Ruge, Nicole Prutsch, Mark W Zimmerman, Thomas Eder, Diaaeldin I Abdallah, Barbara Maurer, Christina Wagner, Susann Schönefeldt, Katrin Spirk, Alexander Pichler, Tea Pemovska, Carmen Schweicker, Daniel Pölöske, Emina Hubanic, Dennis Jungherz, Tony Andreas Müller, Myint Myat Khine Aung, Anna Orlova, Ha Thi Thanh Pham, Kerstin Zimmel, Thomas Krausgruber, Christoph Bock, Mathias Müller, Maik Dahlhoff, Auke Boersma, Thomas Rülicke, Roman Fleck, Elvin Dominic de Araujo, Patrick Thomas Gunning, Tero Aittokallio, Satu Mustjoki, Takaomi Sanda, Sylvia Hartmann, Florian Grebien, Gregor Hoermann, Torsten Haferlach, Philipp Bernhard Staber, Heidi Anne Neubauer, Alfred Thomas Look, Marco Herling, Richard Moriggl.
J Clin Invest. 2024 Apr 15;134(8):e168536. doi: 10.1172/JCI168536.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38618957/

2024

Transient expression of the neuropeptide galanin modulates peripheral‑to‑central connectivity in the somatosensory thalamus during whisker development in mice
Zsofia Hevesi, Joanne Bakker, Evgenii O Tretiakov, Csaba Adori, Anika Raabgrund, Swapnali S Barde, Martino Caramia, Thomas Krausgruber, Sabrina Ladstätter, Christoph Bock, Tomas Hökfelt, Tibor Harkany.
Nat Commun. 2024 Mar 29;15(1):2762. doi: 10.1038/s41467-024-47054-5.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38553447/

2024

Adaptive immune responses are larger and functionally preserved in a hypervaccinated individual
Katharina Kocher, Carolin Moosmann, Felix Drost, Christine Schülein, Pascal Irrgang, Philipp Steininger, Jahn Zhong, Johannes Träger, Bernd Spriewald, Christoph Bock, Dirk H Busch, Christian Bogdan, Benjamin Schubert, Thomas H Winkler, Matthias Tenbusch, Ev-Marie Schuster, Kilian Schober.
Lancet Infect Dis. 2024 May;24(5):e272-e274. doi: 10.1016/S1473-3099(24)00134-8. Epub 2024 Mar 4.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38452777/

2024

One-carbon metabolism nutrients impact the interplay between DNA methylation and gene expression in liver, enhancing protein synthesis in Atlantic salmon
Takaya Saito, Marit Espe, Vibeke Vikeså, Christoph Bock, Tårn H Thomsen, Anne-Catrin Adam, Jorge M O Fernandes, Kaja H Skjaerven.
Epigenetics. 2024 Dec;19(1):2318517. doi: 10.1080/15592294.2024.2318517. Epub 2024 Feb 25.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38404006/

2024

Aberrant Lipid Metabolism in Macrophages Is Associated with Granuloma Formation in Sarcoidosis
Clarice X Lim, Anna Redl, Lisa Kleissl, Ram Vinay Pandey, Carolina Mayerhofer, Thomas El Jammal, Mario Mazic, Karine Gonzales, Nyamdelger Sukhbaatar, Thomas Krausgruber, Christoph Bock, Markus Hengstschläger, Alain Calender, Yves Pacheco, Georg Stary, Thomas Weichhart.
Am J Respir Crit Care Med. 2024 May 1;209(9):1152-1164. doi: 10.1164/rccm.202307-1273OC.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38353578/

2024

Citizen neuroscience: Wearable technology and open software to study the human brain in its natural habitat
Mahdad Jafarzadeh Esfahani, Niloy Sikder, Rob Ter Horst, Amir Hossein Daraie, Kristoffer Appel, Frederik D Weber, Kirsten E Bevelander, Martin Dresler.
Eur J Neurosci. 2024 Mar;59(5):948-965. doi: 10.1111/ejn.16227. Epub 2024 Feb 8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38328991/

2024

Multi-organ single-cell RNA sequencing in mice reveals early hyperglycemia responses that converge on fibroblast dysregulation
Adam T Braithwaite, Naveed Akbar, Daniela Pezzolla, Daan Paget, Thomas Krausgruber, Christoph Bock, Ricardo Carnicer, Robin P Choudhury.
FASEB J. 2024 Feb 15;38(3):e23448. doi: 10.1096/fj.202302003R.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38305779/

2024

Efficacy and safety of mTOR inhibition in cutaneous sarcoidosis: a single-centre trial
Anna Redl, Konstantin Doberer, Luisa Unterluggauer, Lisa Kleissl, Christoph Krall, Carolina Mayerhofer, Bärbel Reininger, Victoria Stary, Nina Zila, Wolfgang Weninger, Thomas Weichhart, Christoph Bock, Thomas Krausgruber, Georg Stary.
Lancet Rheumatol. 2024 Feb;6(2):e81-e91. doi: 10.1016/S2665-9913(23)00302-8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38267106/

2024

Multi-omics analysis of innate and adaptive responses to BCG vaccination reveals epigenetic cell states that predict trained immunity
Simone J C F M Moorlag, Lukas Folkman, Rob Ter Horst, Thomas Krausgruber, Daniele Barreca, Linda C Schuster, Victoria Fife, Vasiliki Matzaraki, Wenchao Li, Stephan Reichl, Vera P Mourits, Valerie A C M Koeken, L Charlotte J de Bree, Helga Dijkstra, Heidi Lemmers, Bram van Cranenbroek, Esther van Rijssen, Hans J P M Koenen, Irma Joosten, Cheng-Jian Xu, Yang Li, Leo A B Joosten, Reinout van Crevel, Mihai G Netea, Christoph Bock.
Immunity. 2024 Jan 9;57(1):171-187.e14. doi: 10.1016/j.immuni.2023.12.005.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38198850/

2023

Sex-specific association of visceral and subcutaneous adipose tissue volumes with systemic inflammation and innate immune cells in people living with obesity
Inge C L van den Munckhof, Harsh Bahrar, Kiki Schraa, Tessa Brand, Rob Ter Horst, Marinette van der Graaf, Helena M Dekker, Rinke Stienstra, Jacqueline de Graaf, Leo A B Joosten, Mihai G Netea, Niels P Riksen, Joost H W Rutten.
Int J Obes (Lond). 2024 Apr;48(4):523-532. doi: 10.1038/s41366-023-01444-9. Epub 2023 Dec 22.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38135702/

2023

Multipotent progenitors instruct ontogeny of the superior colliculus
Giselle Cheung, Florian M Pauler, Peter Koppensteiner, Thomas Krausgruber, Carmen Streicher, Martin Schrammel, Natalie Gutmann-Özgen, Alexis E Ivec, Christoph Bock, Ryuichi Shigemoto, Simon Hippenmeyer.
Neuron. 2024 Jan 17;112(2):230-246.e11. doi: 10.1016/j.neuron.2023.11.009. Epub 2023 Dec 13.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38096816/

2023

RIF1 regulates early replication timing in murine B cells
Daniel Malzl, Mihaela Peycheva, Ali Rahjouei, Stefano Gnan, Kyle N Klein, Mariia Nazarova, Ursula E Schoeberl, David M Gilbert, Sara C B Buonomo, Michela Di Virgilio, Tobias Neumann, Rushad Pavri.
Nat Commun. 2023 Dec 11;14(1):8049. doi: 10.1038/s41467-023-43778-y.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38081811/

2023

Radiomic features define risk and are linked to DNA methylation attributes in primary CNS lymphoma
Karl-Heinz Nenning, Johanna Gesperger, Julia Furtner, Amelie Nemc, Thomas Roetzer-Pejrimovsky, Seung-Won Choi, Christian Mitter, Stefan L Leber, Johannes Hofmanninger, Johanna Klughammer, Bekir Ergüner, Marlies Bauer, Martina Brada, Kyuha Chong, Tanisa Brandner-Kokalj, Christian F Freyschlag, Astrid Grams, Johannes Haybaeck, Selma Hoenigschnabl, Markus Hoffermann, Sarah Iglseder, Barbara Kiesel, Melitta Kitzwoegerer, Waltraud Kleindienst, Franz Marhold, Patrizia Moser, Stefan Oberndorfer, Daniel Pinggera, Florian Scheichel, Camillo Sherif, Guenther Stockhammer, Martin Stultschnig, Claudius Thomé, Johannes Trenkler, Tadeja Urbanic-Purkart, Serge Weis, Georg Widhalm, Franz Wuertz, Matthias Preusser, Bernhard Baumann, Ingrid Simonitsch-Klupp, Do-Hyun Nam, Christoph Bock, Georg Langs, Adelheid Woehrer.
Neurooncol Adv. 2023 Oct 18;5(1):vdad136. doi: 10.1093/noajnl/vdad136. eCollection 2023 Jan-Dec.
Abstract: https://pubmed.ncbi.nlm.nih.gov/38024240/

2023

Metabolic support by macrophages sustains colonic epithelial homeostasis
Stephanie Deborah Fritsch, Nyamdelger Sukhbaatar, Karine Gonzales, Alishan Sahu, Loan Tran, Andrea Vogel, Mario Mazic, Jayne Louise Wilson, Stephan Forisch, Hannah Mayr, Raimund Oberle, Jakob Weiszmann, Martin Brenner, Roeland Vanhoutte, Melanie Hofmann, Sini Pirnes-Karhu, Christoph Magnes, Torben Kühnast, Wolfram Weckwerth, Christoph Bock, Kristaps Klavins, Markus Hengstschläger, Christine Moissl-Eichinger, Gernot Schabbauer, Gerda Egger, Eija Pirinen, Steven H L Verhelst, Thomas Weichhart.
Cell Metab. 2023 Nov 7;35(11):1931-1943.e8. doi: 10.1016/j.cmet.2023.09.010. Epub 2023 Oct 6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37804836/

2023

The effect of leptin on trained innate immunity and on systemic inflammation in subjects with obesity
Daniela Flores Gomez, Siroon Bekkering, Rob Ter Horst, Benjamin Cossins, Inge C L van den Munckhof, Joost H W Rutten, Leo A B Joosten, Mihai G Netea, Niels P Riksen.
J Leukoc Biol. 2023 Sep 30:qiad118. doi: 10.1093/jleuko/qiad118. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37776323/

2023

Identification of novel genetic loci for risk of multiple myeloma by functional annotation
Angelica Macauda, Klara Briem, Alyssa Clay-Gilmour, Wendy Cozen, Asta Försti, Matteo Giaccherini, Chiara Corradi, Juan Sainz, Yasmeen Niazi, Rob Ter Horst, Yang Li, Mihai G Netea, Ulla Vogel, Kari Hemminki, Susan L Slager, Judit Varkonyi, Vibeke Andersen, Elzbieta Iskierka-Jazdzewska, Joaquin Mártinez-Lopez, Jan Zaucha, Nicola J Camp, S Vincent Rajkumar, Agnieszka Druzd-Sitek, Parveen Bhatti, Stephen J Chanock, Shaji K Kumar, Edyta Subocz, Grzegorz Mazur, Stefano Landi, Mitchell J Machiela, Andrés Jerez, Aaron D Norman, Michelle A T Hildebrandt, Katalin Kadar, Sonja I Berndt, Elad Ziv, Gabriele Buda, Arnon Nagler, Charles Dumontet, Malgorzata Raźny, Marzena Watek, Aleksandra Butrym, Norbert Grzasko, Marek Dudzinski, Malwina Rybicka-Ramos, Eva-Laure Matera, Ramón García-Sanz, Hartmut Goldschmidt, Krzysztof Jamroziak, Artur Jurczyszyn, Esther Clavero, Graham G Giles, Matteo Pelosini, Daria Zawirska, Marcin Kruszewski, Herlander Marques, Eva Haastrup, José Manuel Sánchez-Maldonado, Uta Bertsch, Marcin Rymko, Marc-Steffen Raab, Elizabeth E Brown, Jonathan N Hofmann, Celine Vachon, Daniele Campa, Federico Canzian.
Leukemia. 2023 Nov;37(11):2326-2329. doi: 10.1038/s41375-023-02022-8. Epub 2023 Sep 18.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37723249/

2023

Endogenous adenine mediates kidney injury in diabetic models and predicts diabetic kidney disease in patients
Kumar Sharma, Guanshi Zhang, Jens Hansen, Petter Bjornstad, Hak Joo Lee, Rajasree Menon, Leila Hejazi, Jian-Jun Liu, Anthony Franzone, Helen C Looker, Byeong Yeob Choi, Roman Fernandez, Manjeri A Venkatachalam, Luxcia Kugathasan, Vikas S Sridhar, Loki Natarajan, Jing Zhang, Varun S Sharma, Brian Kwan, Sushrut S Waikar, Jonathan Himmelfarb, Katherine R Tuttle, Bryan Kestenbaum, Tobias Fuhrer, Harold I Feldman, Ian H de Boer, Fabio C Tucci, John Sedor, Hiddo Lambers Heerspink, Jennifer Schaub, Edgar A Otto, Jeffrey B Hodgin, Matthias Kretzler, Christopher R Anderton, Theodore Alexandrov, David Cherney, Su Chi Lim, Robert G Nelson, Jonathan Gelfond, Ravi Iyengar, Kidney Precision Medicine Project.
J Clin Invest. 2023 Oct 16;133(20):e170341. doi: 10.1172/JCI170341.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37616058/

2023

Pharmacological perturbation of the phase-separating protein SMNDC1
Lennart Enders, Marton Siklos, Jan Borggräfe, Stefan Gaussmann, Anna Koren, Monika Malik, Tatjana Tomek, Michael Schuster, Jiří Reiniš, Elisa Hahn, Andrea Rukavina, Andreas Reicher, Tamara Casteels, Christoph Bock, Georg E Winter, J Thomas Hannich, Michael Sattler, Stefan Kubicek.
Nat Commun. 2023 Aug 16;14(1):4504. doi: 10.1038/s41467-023-40124-0.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37587144/

2023

Single-cell transcriptomics and epigenomics unravel the role of monocytes in neuroblastoma bone marrow metastasis
Irfete S Fetahu, Wolfgang Esser-Skala, Rohit Dnyansagar, Samuel Sindelar, Fikret Rifatbegovic, Andrea Bileck, Lukas Skos, Eva Bozsaky, Daria Lazic, Lisa Shaw, Marcus Tötzl, Dora Tarlungeanu, Marie Bernkopf, Magdalena Rados, Wolfgang Weninger, Eleni M Tomazou, Christoph Bock, Christopher Gerner, Ruth Ladenstein, Matthias Farlik, Nikolaus Fortelny, Sabine Taschner-Mandl.
Nat Commun. 2023 Jun 26;14(1):3620. doi: 10.1038/s41467-023-39210-0.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37365178/

2023

Buffy coat signatures of breast cancer risk in a prospective cohort study
Felicia Fei-Lei Chung, Sandra González Maldonado, Amelie Nemc, Liacine Bouaoun, Vincent Cahais, Cyrille Cuenin, Aurelie Salle, Theron Johnson, Bekir Ergüner, Marina Laplana, Paul Datlinger, Jana Jeschke, Elisabete Weiderpass, Vessela Kristensen, Suzette Delaloge, François Fuks, Angela Risch, Akram Ghantous, Christoph Plass, Christoph Bock, Rudolf Kaaks, Zdenko Herceg.
Clin Epigenetics. 2023 Jun 12;15(1):102. doi: 10.1186/s13148-023-01509-6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/37309009/

2023

Single-cell and spatial transcriptomics reveal aberrant lymphoid developmental programs driving granuloma formation
Thomas Krausgruber, Anna Redl, Daniele Barreca, Konstantin Doberer, Daria Romanovskaia, Lina Dobnikar, Maria Guarini, Luisa Unterluggauer, Lisa Kleissl, Denise Atzmüller, Carolina Mayerhofer, Aglaja Kopf, Simona Saluzzo, Clarice X Lim, Praveen Rexie, Thomas Weichhart, Christoph Bock, Georg Stary.
Immunity. 2023 Feb 14;56(2):289-306.e7. doi: 10.1016/j.immuni.2023.01.014. Epub 2023 Feb 6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36750099/

2023

LIQUORICE: detection of epigenetic signatures in liquid biopsies based on whole-genome sequencing data
Peter Peneder, Christoph Bock, Eleni M Tomazou.
Bioinform Adv. 2022 Mar 23;2(1):vbac017. doi: 10.1093/bioadv/vbac017. eCollection 2022.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36699368/

2023

Epigenetic regulation of T cell lineages in skin and blood following hematopoietic stem cell transplantation
Ram Vinay Pandey, Johanna Strobl, Anna Redl, Luisa Unterluggauer, Laura Gail, Lisa Kleissl, Sophie Müller, Denise Atzmüller, Victoria Fife-Gernedl, Thomas Krausgruber, Hanna Knaus, Margit Mitterbauer, Philipp Wohlfarth, Werner Rabitsch, Christoph Bock, Georg Stary.
Clin Immunol. 2023 Mar;248:109245. doi: 10.1016/j.clim.2023.109245. Epub 2023 Jan 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36702179/

2023

Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species
Johanna Klughammer, Daria Romanovskaia, Amelie Nemc, Annika Posautz, Charlotte A Seid, Linda C Schuster, Melissa C Keinath, Juan Sebastian Lugo Ramos, Lindsay Kosack, Ann Evankow, Dieter Printz, Stefanie Kirchberger, Bekir Ergüner, Paul Datlinger, Nikolaus Fortelny, Christian Schmidl, Matthias Farlik, Kaja Skjærven, Andreas Bergthaler, Miriam Liedvogel, Denise Thaller, Pamela A Burger, Marcela Hermann, Martin Distel, Daniel L Distel, Anna Kübber-Heiss, Christoph Bock.
Nat Commun. 2023 Jan 16;14(1):232. doi: 10.1038/s41467-022-34828-y.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36646694/

2023

The 2000HIV study: Design, multi-omics methods and participant characteristics
Wilhelm A J W Vos, Albert L Groenendijk, Marc J T Blaauw, Louise E van Eekeren, Adriana Navas, Maartje C P Cleophas, Nadira Vadaq, Vasiliki Matzaraki, Jéssica C Dos Santos, Elise M G Meeder, Janeri Fröberg, Gert Weijers, Yue Zhang, Jingyuan Fu, Rob Ter Horst, Christoph Bock, Rainer Knoll, Anna C Aschenbrenner, Joachim Schultze, Linos Vanderkerckhove, Talent Hwandih, Elizabeth R Wonderlich, Sai V Vemula, Mike van der Kolk, Sterre C P de Vet, Willem L Blok, Kees Brinkman, Casper Rokx, Arnt F A Schellekens, Quirijn de Mast, Leo A B Joosten, Marvin A H Berrevoets, Janneke E Stalenhoef, Annelies Verbon, Jan van Lunzen, Mihai G Netea, Andre J A M van der Ven.
Front Immunol. 2022 Dec 20;13:982746. doi: 10.3389/fimmu.2022.982746. eCollection 2022.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36605197/

2022

Stress signaling boosts interferon-induced gene transcription in macrophages
Laura Boccuni, Elke Podgorschek, Moritz Schmiedeberg, Ekaterini Platanitis, Peter Traxler, Philipp Fischer, Alessia Schirripa, Philipp Novoszel, Angel R Nebreda, J Simon C Arthur, Nikolaus Fortelny, Matthias Farlik, Veronika Sexl, Christoph Bock, Maria Sibilia, Pavel Kovarik, Mathias Müller, Thomas Decker.
Sci Signal. 2022 Dec 13;15(764):eabq5389. doi: 10.1126/scisignal.abq5389. Epub 2022 Dec 13.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36512641/

2022

Interleukin-6 initiates muscle- and adipose tissue wasting in a novel C57BL/6 model of cancer-associated cachexia
Isabella Pototschnig, Ursula Feiler, Clemens Diwoky, Paul W Vesely, Thomas Rauchenwald, Margret Paar, Latifa Bakiri, Laura Pajed, Peter Hofer, Karl Kashofer, Nyamdelger Sukhbaatar, Gabriele Schoiswohl, Thomas Weichhart, Gerald Hoefler, Christoph Bock, Martin Pichler, Erwin F Wagner, Rudolf Zechner, Martina Schweiger.
J Cachexia Sarcopenia Muscle. 2023 Feb;14(1):93-107. doi: 10.1002/jcsm.13109. Epub 2022 Nov 9.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36351437/

2022

Early anteroposterior regionalisation of human neural crest is shaped by a pro-mesodermal factor
Antigoni Gogolou, Celine Souilhol, Ilaria Granata, Filip J Wymeersch, Ichcha Manipur, Matthew Wind, Thomas J R Frith, Maria Guarini, Alessandro Bertero, Christoph Bock, Florian Halbritter, Minoru Takasato, Mario R Guarracino, Anestis Tsakiridis.
Elife. 2022 Sep 26;11:e74263. doi: 10.7554/eLife.74263.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36154671/

2022

SMNDC1 links chromatin remodeling and splicing to regulate pancreatic hormone expression
Tamara Casteels, Simon Bajew, Jiří Reiniš, Lennart Enders, Michael Schuster, Frédéric Fontaine, André C Müller, Bridget K Wagner, Christoph Bock, Stefan Kubicek.
Cell Rep. 2022 Aug 30;40(9):111288. doi: 10.1016/j.celrep.2022.111288.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36044849/

2022

Acknowledging and citing core facilities: Key contributions to data lifecycle should be recognised in the scientific literature: Key contributions to data lifecycle should be recognised in the scientific literature
Katja Kivinen, Henri G A M van Luenen, Myriam Alcalay, Christoph Bock, Joanna Dodzian, Katerina Hoskova, Danielle Hoyle, Ondrej Hradil, Sofie Kjellerup Christensen, Bernhard Korn, Theodoros Kosteas, Mònica Morales, Krzysztof Skowronek, Vasiliki Theodorou, Geert Van Minnebruggen, Jean Salamero, Lavanya Premvardhan.
EMBO Rep. 2022 Sep 5;23(9):e55734. doi: 10.15252/embr.202255734. Epub 2022 Aug 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35997112/

2022

A toolbox for class I HDACs reveals isoform specific roles in gene regulation and protein acetylation
Lena Hess, Verena Moos, Arnel A Lauber, Wolfgang Reiter, Michael Schuster, Natascha Hartl, Daniel Lackner, Thorina Boenke, Anna Koren, Paloma M Guzzardo, Brigitte Gundacker, Anna Riegler, Petra Vician, Claudia Miccolo, Susanna Leiter, Mahesh B Chandrasekharan, Terezia Vcelkova, Andrea Tanzer, Jun Qi Jun, James Bradner, Gerald Brosch, Markus Hartl, Christoph Bock, Tilmann Bürckstümmer, Stefan Kubicek, Susanna Chiocca, Srividya Bhaskara, Christian Seiser.
PLoS Genet. 2022 Aug 22;18(8):e1010376. doi: 10.1371/journal.pgen.1010376. eCollection 2022 Aug.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35994477/

2022

Gruffi: an algorithm for computational removal of stressed cells from brain organoid transcriptomic datasets
Ábel Vértesy, Oliver L Eichmüller, Julia Naas, Maria Novatchkova, Christopher Esk, Meritxell Balmaña, Sabrina Ladstaetter, Christoph Bock, Arndt von Haeseler, Juergen A Knoblich.
EMBO J. 2022 Sep 1;41(17):e111118. doi: 10.15252/embj.2022111118. Epub 2022 Aug 2.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35919947/

2022

Viral variant-resolved wastewater surveillance of SARS-CoV-2 at national scale
Fabian Amman, Rudolf Markt, Lukas Endler, Sebastian Hupfauf, Benedikt Agerer, Anna Schedl, Lukas Richter, Melanie Zechmeister, Martin Bicher, Georg Heiler, Petr Triska, Matthew Thornton, Thomas Penz, Martin Senekowitsch, Jan Laine, Zsofia Keszei, Peter Klimek, Fabiana Nägele, Markus Mayr, Beatrice Daleiden, Martin Steinlechner, Harald Niederstätter, Petra Heidinger, Wolfgang Rauch, Christoph Scheffknecht, Gunther Vogl, Günther Weichlinger, Andreas Otto Wagner, Katarzyna Slipko, Amandine Masseron, Elena Radu, Franz Allerberger, Niki Popper, Christoph Bock, Daniela Schmid, Herbert Oberacher, Norbert Kreuzinger, Heribert Insam, Andreas Bergthaler.
Nat Biotechnol. 2022 Dec;40(12):1814-1822. doi: 10.1038/s41587-022-01387-y. Epub 2022 Jul 18.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35851376/

2022

Validation and functional characterization of GWAS-identified variants for chronic lymphocytic leukemia: a CRuCIAL study
Paloma García-Martín, Ana Moñiz Díez, José Manuel Sánchez Maldonado, Antonio José Cabrera Serrano, Rob Ter Horst, Yolanda Benavente, Stefano Landi, Angelica Macauda, Alyssa Clay-Gilmour, Francisca Hernández-Mohedo, Yasmeen Niazi, Pedro González-Sierra, Blanca Espinet, Juan José Rodríguez-Sevilla, Rossana Maffei, Gonzalo Blanco, Matteo Giaccherini, Anna Puiggros, James Cerhan, Roberto Marasca, Marisa Cañadas-Garre, Miguel Ángel López-Nevot, Tzu Chen-Liang, Hauke Thomsen, Irene Gámez, Víctor Moreno, Rafael Marcos-Gragera, María García-Álvarez, Javier Llorca, Andrés Jerez, Sonja Berndt, Aleksandra Butrym, Aaron D Norman, Delphine Casabonne, Mario Luppi, Susan L Slager, Kari Hemminki, Yang Li, Miguel Alcoceba, Daniele Campa, Federico Canzian, Silvia de Sanjosé, Asta Försti, Mihai G Netea, Manuel Jurado, Juan Sainz.
Blood Cancer J. 2022 May 17;12(5):79. doi: 10.1038/s41408-022-00676-8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35581176/

2022

Comprehensive Analysis of Nasal Polyps Reveals a More Pronounced Type 2 Transcriptomic Profile of Epithelial Cells and Mast Cells in Aspirin-Exacerbated Respiratory Disease
Christine Bangert, Sergio Villazala-Merino, Martin Fahrenberger, Thomas Krausgruber, Wolfgang M Bauer, Victoria Stanek, Nicholas James Campion, Tina Bartosik, Tamara Quint, Guenther Regelsberger, Verena Niederberger-Leppin, Christoph Bock, Sven Schneider, Julia Eckl-Dorna.
Front Immunol. 2022 Mar 28;13:850494. doi: 10.3389/fimmu.2022.850494. eCollection 2022.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35418991/

2022

Emergence of SARS-CoV-2 Alpha lineage and its correlation with quantitative wastewater-based epidemiology data
Elena Radu, Amandine Masseron, Fabian Amman, Anna Schedl, Benedikt Agerer, Lukas Endler, Thomas Penz, Christoph Bock, Andreas Bergthaler, Julia Vierheilig, Peter Hufnagl, Irina Korschineck, Jörg Krampe, Norbert Kreuzinger.
Water Res. 2022 May 15;215:118257. doi: 10.1016/j.watres.2022.118257. Epub 2022 Mar 6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35303559/

2022

Transcriptional, epigenetic and metabolic signatures in cardiometabolic syndrome defined by extreme phenotypes
Denis Seyres, Alessandra Cabassi, John J Lambourne, Frances Burden, Samantha Farrow, Harriet McKinney, Joana Batista, Carly Kempster, Maik Pietzner, Oliver Slingsby, Thong Huy Cao, Paulene A Quinn, Luca Stefanucci, Matthew C Sims, Karola Rehnstrom, Claire L Adams, Amy Frary, Bekir Ergüener, Roman Kreuzhuber, Gabriele Mocciaro, Simona D'Amore, Albert Koulman, Luigi Grassi, Julian L Griffin, Leong Loke Ng, Adrian Park, David B Savage, Claudia Langenberg, Christoph Bock, Kate Downes, Nicholas J Wareham, Michael Allison, Michele Vacca, Paul D W Kirk, Mattia Frontini.
Clin Epigenetics. 2022 Mar 12;14(1):39. doi: 10.1186/s13148-022-01257-z.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35279219/

2022

Rapid neutrophil mobilisation by VCAM-1+ endothelial extracellular vesicles
Naveed Akbar, Adam T Braithwaite, Emma M Corr, Graeme J Koelwyn, Coen van Solingen, Clément Cochain, Antoine-Emmanuel Saliba, Alastair Corbin, Daniela Pezzolla, Malene Møller Jørgensen, Rikke Bæk, Laurienne Edgar, Carla De Villiers, Mala Gunadasa-Rohling, Abhirup Banerjee, Daan Paget, Charlotte Lee, Eleanor Hogg, Adam Costin, Raman Dhaliwal, Errin Johnson, Thomas Krausgruber, Joey Riepsaame, Genevieve E Melling, Mayooran Shanmuganathan, Oxford Acute Myocardial Infarction Study (OxAMI), Christoph Bock, David R F Carter, Keith M Channon, Paul R Riley, Irina A Udalova, Kathryn J Moore, Daniel Anthony, Robin P Choudhury.
Cardiovasc Res. 2022 Feb 4:cvac012. doi: 10.1093/cvr/cvac012. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/35134856/

Year

Paper

2021

Molteni R, Biavasco R, Stefanoni D, Nemkov T, Domínguez-Andrés J, Arts RJ, Merelli I, Mazza D, Zambrano S, Panigada M, Cantoni E, Tengesdal IW, Maksud P, Piras F, Cesana D, Cassina L, Distefano G, Loffreda A, Gnani D, De Luca G, Tomelleri A, Campochiaro C, Joosten LAB, Dinarello CA, Kajaste-Rudnitski A, Haroche J, Cardaci S, Cenci S, Dagna L, Doglioni C, Ferrarini M, Ferrero E, Boletta A, D'Alessandro A, Montini E, Netea MG, Cavalli G. Oncogene-induced maladaptive activation of trained immunity in the pathogenesis and treatment of Erdheim-Chester disease. Blood. 2021 Oct 28;138(17):1554-1569. doi: 10.1182/blood.2020009594.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34077954/

2021

Revilla-I-Domingo R, Rajan VBV, Waldherr M, Prohaczka G, Musset H, Orel L, Gerrard E, Smolka M, Stockinger A, Farlik M, Lucas RJ, Raible F, Tessmar-Raible K. Characterization of cephalic and non-cephalic sensory cell types provides insight into joint photo- and mechanoreceptor evolution. Elife. 2021 Aug 5;10:e66144. doi: 10.7554/eLife.66144.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34350831/

2021

Leber W, Lammel O, Redlberger-Fritz M, Mustafa-Korninger ME, Glehr RC, Camp J, Agerer B, Lercher A, Popa A, Genger JW, Penz T, Aberle S, Bock C, Bergthaler A, Stiasny K, Hochstrasser EM, Hoellinger C, Siebenhofer A, Griffiths C, Panovska-Griffiths J. Rapid, early and accurate SARS-CoV-2 detection using RT-qPCR in primary care: a prospective cohort study (REAP-1). BMJ Open. 2021 Aug 2;11(8):e045225. doi: 10.1136/bmjopen-2020-045225.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34341034/

2021

Casteels T, Zhang Y, Frogne T, Sturtzel C, Lardeau CH, Sen I, Liu X, Hong S, Pauler FM, Penz T, Brandstetter M, Barbieux C, Berishvili E, Heuser T, Bock C, Riedel CG, Meyer D, Distel M, Hecksher-Sørensen J, Li J, Kubicek S. An inhibitor-mediated beta-cell dedifferentiation model reveals distinct roles for FoxO1 in glucagon repression and insulin maturation. Mol Metab. 2021 Dec;54:101329. doi: 10.1016/j.molmet.2021.101329. Epub 2021 Aug 25.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34454092/

2021

Jia R, Kutzner L, Koren A, Runggatscher K, Májek P, Müller AC, Schuster M, Bock C, Loizou JI, Kubicek S, Kralovics R. High-throughput drug screening identifies the ATR-CHK1 pathway as a therapeutic vulnerability of CALR mutated hematopoietic cells. Blood Cancer J. 2021 Jul 31;11(7):137. doi: 10.1038/s41408-021-00531-2.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34333533/

2021

Kilic G, Bulut O, Jaeger M, Ter Horst R, Koeken VACM, Moorlag SJCFM, Mourits VP, de Bree C, Domínguez-Andrés J, Joosten LAB, Netea MG. The Immunological Factors Predisposing to Severe Covid-19 Are Already Present in Healthy Elderly and Men. Front Immunol. 2021 Aug 9;12:720090. doi: 10.3389/fimmu.2021.720090. eCollection 2021.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34434199/

2021

Strobl J, Gail LM, Kleissl L, Pandey RV, Smejkal V, Huber J, Puxkandl V, Unterluggauer L, Dingelmaier-Hovorka R, Atzmüller D, Krausgruber T, Bock C, Wohlfarth P, Rabitsch W, Stary G. Human resident memory T cells exit the skin and mediate systemic Th2-driven inflammation. J Exp Med. 2021 Nov 1;218(11):e20210417. doi: 10.1084/jem.20210417. Epub 2021 Oct 13.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34643646/

2021

Santini L, Halbritter F, Titz-Teixeira F, Suzuki T, Asami M, Ma X, Ramesmayer J, Lackner A, Warr N, Pauler F, Hippenmeyer S, Laue E, Farlik M, Bock C, Beyer A, Perry ACF, Leeb M. Genomic imprinting in mouse blastocysts is predominantly associated with H3K27me3. Nat Commun. 2021 Jun 21;12(1):3804. doi: 10.1038/s41467-021-23510-4.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34155196/

2021

Kollmann S, Grausenburger R, Klampfl T, Prchal-Murphy M, Bastl K, Pisa H, Knab VM, Brandstoetter T, Doma E, Sperr WR, Lagger S, Farlik M, Moriggl R, Valent P, Halbritter F, Kollmann K, Heller G, Maurer B, Sexl V. A STAT5B-CD9 axis determines self-renewal in hematopoietic and leukemic stem cells. Blood. 2021 Dec 9;138(23):2347-2359. doi: 10.1182/blood.2021010980.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34320169/

2021

Min JL, Hemani G, Hannon E, Dekkers KF, Castillo-Fernandez J, Luijk R, Carnero-Montoro E, Lawson DJ, Burrows K, Suderman M, Bretherick AD, Richardson TG, Klughammer J, Iotchkova V, Sharp G, Al Khleifat A, Shatunov A, Iacoangeli A, McArdle WL, Ho KM, Kumar A, Söderhäll C, Soriano-Tárraga C, Giralt-Steinhauer E, Kazmi N, Mason D, McRae AF, Corcoran DL, Sugden K, Kasela S, Cardona A, Day FR, Cugliari G, Viberti C, Guarrera S, Lerro M, Gupta R, Bollepalli S, Mandaviya P, Zeng Y, Clarke TK, Walker RM, Schmoll V, Czamara D, Ruiz-Arenas C, Rezwan FI, Marioni RE, Lin T, Awaloff Y, Germain M, Aïssi D, Zwamborn R, van Eijk K, Dekker A, van Dongen J, Hottenga JJ, Willemsen G, Xu CJ, Barturen G, Català-Moll F, Kerick M, Wang C, Melton P, Elliott HR, Shin J, Bernard M, Yet I, Smart M, Gorrie-Stone T; BIOS Consortium, Shaw C, Al Chalabi A, Ring SM, Pershagen G, Melén E, Jiménez-Conde J, Roquer J, Lawlor DA, Wright J, Martin NG, Montgomery GW, Moffitt TE, Poulton R, Esko T, Milani L, Metspalu A, Perry JRB, Ong KK, Wareham NJ, Matullo G, Sacerdote C, Panico S, Caspi A, Arseneault L, Gagnon F, Ollikainen M, Kaprio J, Felix JF, Rivadeneira F, Tiemeier H, et al. Genomic and phenotypic insights from an atlas of genetic effects on DNA methylation. Nat Genet. 2021 Sep;53(9):1311-1321. doi: 10.1038/s41588-021-00923-x. Epub 2021 Sep 6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34493871/

2021

Peneder P, Stütz AM, Surdez D, Krumbholz M, Semper S, Chicard M, Sheffield NC, Pierron G, Lapouble E, Tötzl M, Ergüner B, Barreca D, Rendeiro AF, Agaimy A, Boztug H, Engstler G, Dworzak M, Bernkopf M, Taschner-Mandl S, Ambros IM, Myklebost O, Marec-Bérard P, Burchill SA, Brennan B, Strauss SJ, Whelan J, Schleiermacher G, Schaefer C, Dirksen U, Hutter C, Boye K, Ambros PF, Delattre O, Metzler M, Bock C, Tomazou EM. Multimodal analysis of cell-free DNA whole-genome sequencing for pediatric cancers with low mutational burden. Nat Commun. 2021 May 28;12(1):3230. doi: 10.1038/s41467-021-23445-w.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34050156/

2021

Datlinger P, Rendeiro AF, Boenke T, Senekowitsch M, Krausgruber T, Barreca D, Bock C. Ultra-high-throughput single-cell RNA sequencing and perturbation screening with combinatorial fluidic indexing. Nat Methods. 2021 Jun;18(6):635-642. doi: 10.1038/s41592-021-01153-z. Epub 2021 May 31.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34059827/

2021

Haimel H, Pazmandi J, Jiménez Heredia R, Dmytrus J, Köstel Bal S, Zoghi S, van Daele P, Briggs TA, Wouters C, Bader-Meunier B, Aeschlimann FA, Caorsi R, Eleftheriou D, Hoppenreijs E, Salzer E, Bakhtiar S, Derfalvi B, Saettini F, Kusters MAA, Elfeky R, Trück J, Rivière JQ, van der Burg M, Gattorno M, Seidel MG, Burns S, Warnatz K, Hauck F, Brogan P, Gilmour KC, Schuetz C, Simon A, Bock C, Hambleton S, de Vries E, Robinson PN, van Gijn M, Boztug K. Curation and expansion of Human Phenotype Ontology for defined groups of inborn errors of immunity. J Allergy Clin Immunol . 2021 May 12;S0091-6749(21)00732-6. doi: 10.1016/j.jaci.2021.04.033. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33991581/ _blank

2021

Datlinger P, Rendeiro AF, Boenke T, Senekowitsch M, Krausgruber T, Barreca D, Bock C. Ultra-high-throughput single-cell RNA sequencing and perturbation screening with combinatorial fluidic indexing. Nat Methods . 2021 Jun;18(6):635-642. doi: 10.1038/s41592-021-01153-z. Epub 2021 May 31.
Abstract: https://pubmed.ncbi.nlm.nih.gov/34059827/ _blank

2021

Jühling F, Hamdane N, Crouchet E, Li S, El Saghire H, Mukherji A, Fujiwara N, Oudot MA, Thumann C, Saviano A, Roca Suarez AA, Goto K, Masia R, Sojoodi M, Arora G, Aikata H, Ono A, Tabrizian P, Schwartz M, Polyak SJ, Davidson I, Schmidl C, Bock C, Schuster C, Chayama K, Pessaux P, Tanabe KK, Hoshida Y, Zeisel MB, Duong FH, Fuchs BC, Baumert TF. Targeting clinical epigenetic reprogramming for chemoprevention of metabolic and viral hepatocellular carcinoma. Gut. 2021 Jan;70(1):157-169. doi: 10.1136/gutjnl-2019-318918. Epub 2020 Mar 26.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32217639/

2021

Kretzmer H, Biran A, Purroy N, Lemvigh C, Clement K, Gruber M, Gu H, Rassenti L, Mohammad AW, Lesnick C, Slager SL, Braggio E, Shanafelt TD, Kay NE, Fernandes S, Brown JR, Wang L, Li S, Livak KJ, Neuberg DS, Klages S, Timmermann B, Kipps TJ, Campo E, Gnirke A, Wu CJ, Meissner A. Preneoplastic Alterations Define CLL DNA Methylome and Persist through Disease Progression and Therapy. Blood Cancer Discov. 2021 Jan;2(1):54-69. doi: 10.1158/2643-3230.BCD-19-0058. Epub 2020 Dec 3.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33604581/

2021

Redl E, Sheibani-Tezerji R, Cardona CJ, Hamminger P, Timelthaler G, Hassler MR, Zrimšek M, Lagger S, Dillinger T, Hofbauer L, Draganić K, Tiefenbacher A, Kothmayer M, Dietz CH, Ramsahoye BH, Kenner L, Bock C, Seiser C, Ellmeier W, Schweikert G, Egger G. Requirement of DNMT1 to orchestrate epigenomic reprogramming for NPM-ALK-driven lymphomagenesis. Life Sci Alliance. 2020 Dec 11;4(2):e202000794. doi: 10.26508/lsa.202000794. Print 2021 Feb.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33310759/

2021

Swoboda A, Soukup R, Eckel O, Kinslechner K, Wingelhofer B, Schörghofer D, Sternberg C, Pham HTT, Vallianou M, Horvath J, Stoiber D, Kenner L, Larue L, Poli V, Beermann F, Yokota T, Kubicek S, Krausgruber T, Rendeiro AF, Bock C, Zenz R, Kovacic B, Aberger F, Hengstschläger M, Petzelbauer P, Mikula M, Moriggl R. STAT3 promotes melanoma metastasis by CEBP-induced repression of the MITF pathway. Oncogene. 2021 Feb;40(6):1091-1105. doi: 10.1038/s41388-020-01584-6. Epub 2020 Dec 15.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33323974/

2021

Paolino M, Koglgruber R, Cronin SJF, Uribesalgo I, Rauscher E, Harreiter J, Schuster M, Bancher-Todesca D, Pranjic B, Novatchkova M, Fededa JP, White AJ, Sigl V, Dekan S, Penz T, Bock C, Kenner L, Holländer GA, Anderson G, Kautzky-Willer A, Penninger JM. RANK links thymic regulatory T cells to fetal loss and gestational diabetes in pregnancy. Nature. 2021 Jan;589(7842):442-447. doi: 10.1038/s41586-020-03071-0. Epub 2020 Dec 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33361811/

2021

Bock C, Boutros M, Camp JG, Clarke L, Clevers H, Knoblich JA, Liberali P, Regev A, Rios AC, Stegle O, Stunnenberg HG, Teichmann SA, Treutlein B, Vries RGJ; Human Cell Atlas ‘Biological Network’ Organoids. The Organoid Cell Atlas. Nat Biotechnol. 2021 Jan;39(1):13-17. doi: 10.1038/s41587-020-00762-x.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33384458/

2021

Thomas HF, Kotova E, Jayaram S, Pilz A, Romeike M, Lackner A, Penz T, Bock C, Leeb M, Halbritter F, Wysocka J, Buecker C. Temporal dissection of an enhancer cluster reveals distinct temporal and functional contributions of individual elements. Mol Cell. 2021 Mar 4;81(5):969-982.e13. doi: 10.1016/j.molcel.2020.12.047. Epub 2021 Jan 21.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33482114/

2021

Bangert C, Rindler K, Krausgruber T, Alkon N, Thaler FM, Kurz H, Ayub T, Demirtas D, Fortelny N, Vorstandlechner V, Bauer WM, Quint T, Mildner M, Jonak C, Elbe-Bürger A, Griss J, Bock C, Brunner PM. Persistence of mature dendritic cells, T(H)2A, and Tc2 cells characterize clinically resolved atopic dermatitis under IL-4Rα blockade. Sci Immunol. 2021 Jan 22;6(55):eabe2749. doi: 10.1126/sciimmunol.abe2749.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33483337/

2021

Müller JA, Groß R, Conzelmann C, Krüger J, Merle U, Steinhart J, Weil T, Koepke L, Bozzo CP, Read C, Fois G, Eiseler T, Gehrmann J, van Vuuren J, Wessbecher IM, Frick M, Costa IG, Breunig M, Grüner B, Peters L, Schuster M, Liebau S, Seufferlein T, Stenger S, Stenzinger A, MacDonald PE, Kirchhoff F, Sparrer KMJ, Walther P, Lickert H, Barth TFE, Wagner M, Münch J, Heller S, Kleger A. SARS-CoV-2 infects and replicates in cells of the human endocrine and exocrine pancreas. Nat Metab. 2021 Feb;3(2):149-165. doi: 10.1038/s42255-021-00347-1. Epub 2021 Feb 3.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33536639/

2021

Schick S, Grosche S, Kohl KE, Drpic D, Jaeger MG, Marella NC, Imrichova H, Lin JG, Hofstätter G, Schuster M, Rendeiro AF, Koren A, Petronczki M, Bock C, Müller AC, Winter GE, Kubicek S. Acute BAF perturbation causes immediate changes in chromatin accessibility. Nat Genet. 2021 Mar;53(3):269-278. doi: 10.1038/s41588-021-00777-3. Epub 2021 Feb 8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33558760/

2021

Steindl A, Alpar D, Heller G, Mair MJ, Gatterbauer B, Dieckmann K, Widhalm G, Hainfellner JA, Schmidinger M, Bock C, Müllauer L, Preusser M, Berghoff AS. Tumor mutational burden and immune infiltrates in renal cell carcinoma and matched brain metastases. ESMO Open. 2021 Apr;6(2):100057. doi: 10.1016/j.esmoop.2021.100057. Epub 2021 Feb 12.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33588158/

2021

Berg JL, Perfler B, Hatzl S, Uhl B, Reinisch A, Pregartner G, Berghold A, Penz T, Schuster M, Geissler K, Prokesch A, Müller-Tidow C, Hoefler G, Kashofer K, Wölfler A, Sill H, Caraffini V, Zebisch A. EZH2 inactivation in RAS-driven myeloid neoplasms hyperactivates RAS-signaling and increases MEK inhibitor sensitivity. Leukemia. 2021 Feb 15. doi: 10.1038/s41375-021-01161-0. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33589750/

2021

Valent P, Orfao A, Kubicek S, Staber P, Haferlach T, Deininger M, Kollmann K, Lion T, Virgolini I, Winter G, Hantschel O, Kenner L, Zuber J, Grebien F, Moriggl R, Hoermann G, Hermine O, Andreeff M, Bock C, Mughal T, Constantinescu SN, Kralovics R, Sexl V, Skoda R, Superti-Furga G, Jäger U. Precision Medicine in Hematology 2021: Definitions, Tools, Perspectives, and Open Questions. Hemasphere. 2021 Feb 17;5(3):e536. doi: 10.1097/HS9.0000000000000536. eCollection 2021 Mar.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33623882/

2021

Hamminger P, Marchetti L, Preglej T, Platzer R, Zhu C, Kamnev A, Rica R, Stolz V, Sandner L, Alteneder M, Kaba E, Waltenberger D, Huppa JB, Trauner M, Bock C, Lyck R, Bauer J, Dupré L, Seiser C, Boucheron N, Engelhardt B, Ellmeier W. Histone deacetylase 1 controls CD4(+) T cell trafficking in autoinflammatory diseases. J Autoimmun. 2021 May;119:102610. doi: 10.1016/j.jaut.2021.102610. Epub 2021 Feb 20.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33621930/

2021

Rindler K, Krausgruber T, Thaler FM, Alkon N, Bangert C, Kurz H, Fortelny N, Rojahn TB, Jonak C, Griss J, Bock C, Brunner PM. Spontaneously Resolved Atopic Dermatitis Shows Melanocyte and Immune Cell Activation Distinct From Healthy Control Skin. Front Immunol. 2021 Feb 24;12:630892. doi: 10.3389/fimmu.2021.630892. eCollection 2021.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33717163/

2021

Mayor-Ruiz C, Bauer S, Brand M, Kozicka Z, Siklos M, Imrichova H, Kaltheuner IH, Hahn E, Seiler K, Koren A, Petzold G, Fellner M, Bock C, Müller AC, Zuber J, Geyer M, Thomä NH, Kubicek S, Winter GE. Publisher Correction: Rational discovery of molecular glue degraders via scalable chemical profiling. Nat Chem Biol. 2021 Mar;17(3):361. doi: 10.1038/s41589-021-00735-4.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33452497/

2021

Agerer B, Koblischke M, Gudipati V, Montaño-Gutierrez LF, Smyth M, Popa A, Genger JW, Endler L, Florian DM, Mühlgrabner V, Graninger M, Aberle SW, Husa AM, Shaw LE, Lercher A, Gattinger P, Torralba-Gombau R, Trapin D, Penz T, Barreca D, Fae I, Wenda S, Traugott M, Walder G, Pickl WF, Thiel V, Allerberger F, Stockinger H, Puchhammer-Stöckl E, Weninger W, Fischer G, Hoepler W, Pawelka E, Zoufaly A, Valenta R, Bock C, Paster W, Geyeregger R, Farlik M, Halbritter F, Huppa JB, Aberle JH, Bergthaler A. SARS-CoV-2 mutations in MHC-I-restricted epitopes evade CD8(+) T cell responses. Sci Immunol. 2021 Mar 4;6(57):eabg6461. doi: 10.1126/sciimmunol.abg6461.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33664060/

2021

Gülich AF, Rica R, Tizian C, Viczenczova C, Khamina K, Faux T, Hainberger D, Penz T, Bosselut R, Bock C, Laiho A, Elo LL, Bergthaler A, Ellmeier W, Sakaguchi S. Complex Interplay Between MAZR and Runx3 Regulates the Generation of Cytotoxic T Lymphocyte and Memory T Cells. Front Immunol. 2021 Mar 17;12:535039. doi: 10.3389/fimmu.2021.535039. eCollection 2021.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33815354/

2021

Achyutuni S, Nivarthi H, Majoros A, Hug E, Schueller C, Jia R, Varga C, Schuster M, Senekowitsch M, Tsiantoulas D, Kavirayani A, Binder CJ, Bock C, Zagrijtschuk O, Kralovics R. Hematopoietic expression of a chimeric murine-human CALR oncoprotein allows the assessment of anti-CALR antibody immunotherapies in vivo. Am J Hematol. 2021 Mar 24. doi: 10.1002/ajh.26171. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33761144/

2021

Rajewsky N, Almouzni G, Gorski SA, Aerts S, Amit I, Bertero MG, Bock C, Bredenoord AL, Cavalli G, Chiocca S, Clevers H, De Strooper B, Eggert A, Ellenberg J, Fernández XM, Figlerowicz M, Gasser SM, Hubner N, Kjems J, Knoblich JA, Krabbe G, Lichter P, Linnarsson S, Marine JC, Marioni JC, Marti-Renom MA, Netea MG, Nickel D, Nollmann M, Novak HR, Parkinson H, Piccolo S, Pinheiro I, Pombo A, Popp C, Reik W, Roman-Roman S, Rosenstiel P, Schultze JL, Stegle O, Tanay A, Testa G, Thanos D, Theis FJ, Torres-Padilla ME, Valencia A, Vallot C, van Oudenaarden A, Vidal M, Voet T; LifeTime Community Working Groups. Publisher Correction: LifeTime and improving European healthcare through cell-based interceptive medicine. Nature. 2021 Apr;592(7852):E8. doi: 10.1038/s41586-021-03287-8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33731935/

2021

Reitermaier R, Krausgruber T, Fortelny N, Ayub T, Vieyra-Garcia PA, Kienzl P, Wolf P, Scharrer A, Fiala C, Kölz M, Hiess M, Vierhapper M, Schuster C, Spittler A, Worda C, Weninger W, Bock C, Eppel W, Elbe-Bürger A. αβγδ T cells play a vital role in fetal human skin development and immunity. J Exp Med. 2021 Apr 5;218(4):e20201189. doi: 10.1084/jem.20201189.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33561194/

2020

Strobl J, Pandey RV, Krausgruber T, Kleissl L, Reininger B, Herac M, Bayer N, Krall C, Wohlfarth P, Mitterbauer M, Kalhs P, Rabitsch W, Bock C, Hopfinger G, Stary G. Anti-Apoptotic Molecule BCL2 Is a Therapeutic Target in Steroid-Refractory Graft-Versus-Host Disease. J Invest Dermatol. 2020 Nov;140(11):2188-2198. doi: 10.1016/j.jid.2020.02.029. Epub 2020 Apr 2.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32247860/

2020

Rojahn TB, Vorstandlechner V, Krausgruber T, Bauer WM, Alkon N, Bangert C, Thaler FM, Sadeghyar F, Fortelny N, Gernedl V, Rindler K, Elbe-Bürger A, Bock C, Mildner M, Brunner PM. Single-cell transcriptomics combined with interstitial fluid proteomics defines cell type-specific immune regulation in atopic dermatitis. J Allergy Clin Immunol. 2020 Nov;146(5):1056-1069. doi: 10.1016/j.jaci.2020.03.041. Epub 2020 Apr 25.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32344053/

2020

Romanov RA, Tretiakov EO, Kastriti ME, Zupancic M, Häring M, Korchynska S, Popadin K, Benevento M, Rebernik P, Lallemend F, Nishimori K, Clotman F, Andrews WD, Parnavelas JG, Farlik M, Bock C, Adameyko I, Hökfelt T, Keimpema E, Harkany T. Molecular design of hypothalamus development. Nature. 2020 Jun;582(7811):246-252. doi: 10.1038/s41586-020-2266-0. Epub 2020 May 6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32499648/

2020

Jaeger MG, Schwalb B, Mackowiak SD, Velychko T, Hanzl A, Imrichova H, Brand M, Agerer B, Chorn S, Nabet B, Ferguson FM, Müller AC, Bergthaler A, Gray NS, Bradner JE, Bock C, Hnisz D, Cramer P, Winter GE. Selective Mediator dependence of cell-type-specifying transcription. Nat Genet. 2020 Jul;52(7):719-727. doi: 10.1038/s41588-020-0635-0. Epub 2020 Jun 1.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32483291/

2020

Hubmann R, Schnabl S, Araghi M, Schmidl C, Rendeiro AF, Hilgarth M, Demirtas D, Ali F, Staber PB, Valent P, Zielinski C, Jäger U, Shehata M. Targeting Nuclear NOTCH2 by Gliotoxin Recovers a Tumor-Suppressor NOTCH3 Activity in CLL. Cells. 2020 Jun 18;9(6):1484. doi: 10.3390/cells9061484.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32570839/

2020

Krausgruber T, Fortelny N, Fife-Gernedl V, Senekowitsch M, Schuster LC, Lercher A, Nemc A, Schmidl C, Rendeiro AF, Bergthaler A, Bock C. Structural cells are key regulators of organ-specific immune responses. Nature. 2020 Jul;583(7815):296-302. doi: 10.1038/s41586-020-2424-4. Epub 2020 Jul 1.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32612232/

2020

Salzer E, Zoghi S, Kiss MG, Kage F, Rashkova C, Stahnke S, Haimel M, Platzer R, Caldera M, Ardy RC, Hoeger B, Block J, Medgyesi D, Sin C, Shahkarami S, Kain R, Ziaee V, Hammerl P, Bock C, Menche J, Dupré L, Huppa JB, Sixt M, Lomakin A, Rottner K, Binder CJ, Stradal TEB, Rezaei N, Boztug K. The cytoskeletal regulator HEM1 governs B cell development and prevents autoimmunity. Sci Immunol. 2020 Jul 10;5(49):eabc3979. doi: 10.1126/sciimmunol.abc3979.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32646852/

2020

Akgün M, Ünal AB, Ergüner B, Pfeifer N, Kohlbacher O. Identifying Disease-Causing Mutations with Privacy Protection. Bioinformatics. 2020 Jul 19;36(21):5205–13. doi: 10.1093/bioinformatics/btaa641. Epub ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32683440/

2020

Laukoter S, Pauler FM, Beattie R, Amberg N, Hansen AH, Streicher C, Penz T, Bock C, Hippenmeyer S. Cell-Type Specificity of Genomic Imprinting in Cerebral Cortex. Neuron. 2020 Sep 23;107(6):1160-1179.e9. doi: 10.1016/j.neuron.2020.06.031. Epub 2020 Jul 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32707083/

2020

Fortelny N, Bock C. Knowledge-primed neural networks enable biologically interpretable deep learning on single-cell sequencing data. Genome Biol. 2020 Aug 3;21(1):190. doi: 10.1186/s13059-020-02100-5.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32746932/

2020

Mayor-Ruiz C, Bauer S, Brand M, Kozicka Z, Siklos M, Imrichova H, Kaltheuner IH, Hahn E, Seiler K, Koren A, Petzold G, Fellner M, Bock C, Müller AC, Zuber J, Geyer M, Thomä NH, Kubicek S, Winter GE. Rational discovery of molecular glue degraders via scalable chemical profiling. Nat Chem Biol. 2020 Nov;16(11):1199-1207. doi: 10.1038/s41589-020-0594-x. Epub 2020 Aug 3. Erratum in: Nat Chem Biol. 2021 Mar;17(3):361.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32747809/

2020

Kreidl P, Schmid D, Maritschnik S, Richter L, Borena W, Genger JW, Popa A, Penz T, Bock C, Bergthaler A, Allerberger F. Emergence of coronavirus disease 2019 (COVID-19) in Austria. Wien Klin Wochenschr. 2020 Nov;132(21-22):645-652. doi: 10.1007/s00508-020-01723-9. Epub 2020 Aug 20.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32816114/

2020

Turelli P, Playfoot C, Grun D, Raclot C, Pontis J, Coudray A, Thorball C, Duc J, Pankevich EV, Deplancke B, Busskamp V, Trono D. Primate-restricted KRAB zinc finger proteins and target retrotransposons control gene expression in human neurons. Sci Adv. 2020 Aug 28;6(35):eaba3200. doi: 10.1126/sciadv.aba3200.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32923624/

2020

Rajewsky N, Almouzni G, Gorski SA, Aerts S, Amit I, Bertero MG, Bock C, Bredenoord AL, Cavalli G, Chiocca S, Clevers H, De Strooper B, Eggert A, Ellenberg J, Fernández XM, Figlerowicz M, Gasser SM, Hubner N, Kjems J, Knoblich JA, Krabbe G, Lichter P, Linnarsson S, Marine JC, Marioni JC, Marti-Renom MA, Netea MG, Nickel D, Nollmann M, Novak HR, Parkinson H, Piccolo S, Pinheiro I, Pombo A, Popp C, Reik W, Roman-Roman S, Rosenstiel P, Schultze JL, Stegle O, Tanay A, Testa G, Thanos D, Theis FJ, Torres-Padilla ME, Valencia A, Vallot C, van Oudenaarden A, Vidal M, Voet T; LifeTime Community Working Groups. LifeTime and improving European healthcare through cell-based interceptive medicine. Nature. 2020 Nov;587(7834):377-386. doi: 10.1038/s41586-020-2715-9. Epub 2020 Sep 7. Erratum in: Nature. 2021 Apr;592(7852):E8.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32894860/

2020

Ruiz-Villalba A, Romero JP, Hernández SC, Vilas-Zornoza A, Fortelny N, Castro-Labrador L, San Martin-Uriz P, Lorenzo-Vivas E, García-Olloqui P, Palacio M, Gavira JJ, Bastarrika G, Janssens S, Wu M, Iglesias E, Abizanda G, de Morentin XM, Lasaga M, Planell N, Bock C, Alignani D, Medal G, Prudovsky I, Jin YR, Ryzhov S, Yin H, Pelacho B, Gomez-Cabrero D, Lindner V, Lara-Astiaso D, Prósper F. Single-Cell RNA Sequencing Analysis Reveals a Crucial Role for CTHRC1 (Collagen Triple Helix Repeat Containing 1) Cardiac Fibroblasts After Myocardial Infarction. Circulation. 2020 Nov 10;142(19):1831-1847. doi: 10.1161/CIRCULATIONAHA.119.044557. Epub 2020 Sep 25.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32972203/

2020

Dobon B, Ter Horst R, Laayouni H, Mondal M, Bianco E, Comas D, Ioana M, Bosch E, Bertranpetit J, Netea MG. The shaping of immunological responses through natural selection after the Roma Diaspora. Sci Rep. 2020 Sep 30;10(1):16134. doi: 10.1038/s41598-020-73182-1.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32999407/

2020

de Bree LCJ, Mourits VP, Koeken VA, Moorlag SJ, Janssen R, Folkman L, Barreca D, Krausgruber T, Fife-Gernedl V, Novakovic B, Arts RJ, Dijkstra H, Lemmers H, Bock C, Joosten LA, van Crevel R, Benn CS, Netea MG. Circadian rhythm influences induction of trained immunity by BCG vaccination. J Clin Invest. 2020 Oct 1;130(10):5603-5617. doi: 10.1172/JCI133934.
Abstract: https://pubmed.ncbi.nlm.nih.gov/32692732/

2020

Yu YR, Imrichova H, Wang H, Chao T, Xiao Z, Gao M, Rincon-Restrepo M, Franco F, Genolet R, Cheng WC, Jandus C, Coukos G, Jiang YF, Locasale JW, Zippelius A, Liu PS, Tang L, Bock C, Vannini N, Ho PC. Disturbed mitochondrial dynamics in CD8(+) TILs reinforce T cell exhaustion. Nat Immunol. 2020 Dec;21(12):1540-1551. doi: 10.1038/s41590-020-0793-3. Epub 2020 Oct 5.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33020660/

2020

Stary V, Pandey RV, Strobl J, Kleissl L, Starlinger P, Pereyra D, Weninger W, Fischer GF, Bock C, Farlik M, Stary G. A discrete subset of epigenetically primed human NK cells mediates antigen-specific immune responses. Sci Immunol. 2020 Oct 16;5(52):eaba6232. doi: 10.1126/sciimmunol.aba6232.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33067380/

2020

Nenning KH, Furtner J, Kiesel B, Schwartz E, Roetzer T, Fortelny N, Bock C, Grisold A, Marko M, Leutmezer F, Liu H, Golland P, Stoecklein S, Hainfellner JA, Kasprian G, Prayer D, Marosi C, Widhalm G, Woehrer A, Langs G. Distributed changes of the functional connectome in patients with glioblastoma. Sci Rep. 2020 Oct 27;10(1):18312. doi: 10.1038/s41598-020-74726-1.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33110138/

2020

Strobl J, Pandey RV, Krausgruber T, Bayer N, Kleissl L, Reininger B, Vieyra-Garcia P, Wolf P, Jentus MM, Mitterbauer M, Wohlfarth P, Rabitsch W, Stingl G, Bock C, Stary G. Long-term skin-resident memory T cells proliferate in situ and are involved in human graft-versus-host disease. Sci Transl Med. 2020 Nov 18;12(570):eabb7028. doi: 10.1126/scitranslmed.abb7028.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33208504/

2020

Popa A, Genger JW, Nicholson MD, Penz T, Schmid D, Aberle SW, Agerer B, Lercher A, Endler L, Colaço H, Smyth M, Schuster M, Grau ML, Martínez-Jiménez F, Pich O, Borena W, Pawelka E, Keszei Z, Senekowitsch M, Laine J, Aberle JH, Redlberger-Fritz M, Karolyi M, Zoufaly A, Maritschnik S, Borkovec M, Hufnagl P, Nairz M, Weiss G, Wolfinger MT, von Laer D, Superti-Furga G, Lopez-Bigas N, Puchhammer-Stöckl E, Allerberger F, Michor F, Bock C, Bergthaler A. Genomic epidemiology of superspreading events in Austria reveals mutational dynamics and transmission properties of SARS-CoV-2. Sci Transl Med. 2020 Dec 9;12(573):eabe2555. doi: 10.1126/scitranslmed.abe2555. Epub 2020 Nov 23.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33229462/

2020

Kretzmer H, Biran A, Purroy N, Lemvigh C, Clement K, Gruber M, Gu H, Rassenti L, Mohammad AW, Lesnick C, Slager SL, Braggio E, Shanafelt TD, Kay NE, Fernandes S, Brown JR, Wang L, Li S, Livak KJ, Neuberg DS, Klages S, Timmermann B, Kipps 9: Wöran K, Semmler G, Jachs M, Simbrunner B, Maria Bauer DJ, Binter T, Pomej K, Stättermayer AF, Schwabl P, Bucsics T, Paternostro R, Lampichler K, Pinter M, Trauner M, Mandorfer M, Stift J, Reiberger T, Scheiner B. Clinical Course of Porto-Sinusoidal Vascular Disease Is Distinct From Idiopathic Noncirrhotic Portal Hypertension. Clin Gastroenterol Hepatol. 2020 Dec 3:S1542-3565(20)31629-3. doi: 10.1016/j.cgh.2020.11.039. Epub ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33604581/

2020

Redl E, Sheibani-Tezerji R, Cardona CJ, Hamminger P, Timelthaler G, Hassler MR, Zrimšek M, Lagger S, Dillinger T, Hofbauer L, Draganić K, Tiefenbacher A, Kothmayer M, Dietz CH, Ramsahoye BH, Kenner L, Bock C, Seiser C, Ellmeier W, Schweikert G, Egger G. Requirement of DNMT1 to orchestrate epigenomic reprogramming for NPM-ALK-driven lymphomagenesis. Life Sci Alliance. 2020 Dec 11;4(2):e202000794. doi: 10.26508/lsa.202000794.
Abstract: https://pubmed.ncbi.nlm.nih.gov/33310759/

2020

Hainberger D, Stolz V, Zhu C, Schuster M, Müller L, Hamminger P, Rica R, Waltenberger D, Alteneder M, Krausgruber T, Hladik A, Knapp S, Bock C, Trauner M, Farrar MA, Ellmeier W. NCOR1 Orchestrates Transcriptional Landscapes and Effector Functions of CD4+ T Cells. Front Immunol. 2020 Apr 3;11:579. doi: 10.3389/fimmu.2020.00579.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32318068

2020

Ulz P, Perakis S, Zhou Q, Moser T, Belic J, Lazzeri I, Wölfler A, Zebisch A, Gerger A, Pristauz G, Petru E, White B, Roberts CES, John JS, Schimek MG, Geigl JB, Bauernhofer T, Sill H, Bock C, Heitzer E, Speicher MR. Publisher Correction: Inference of transcription factor binding from cell-free DNA enables tumor subtype prediction and early detection. Nat Commun. 2020 Apr 20;11(1):1965. doi: 10.1038/s41467-020-15799-4. Erratum for: Nat Commun. 2019 Oct 11;10(1):4666.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32313081

2020

Rosser EC, Piper CJM, Matei DE, Blair PA, Rendeiro AF, Orford M, Alber DG, Krausgruber T, Catalan D, Klein N, Manson JJ, Drozdov I, Bock C, Wedderburn LR, Eaton S, Mauri C. Microbiota-Derived Metabolites Suppress Arthritis by Amplifying Aryl-Hydrocarbon Receptor Activation in Regulatory B Cells. Cell Metab. 2020 Apr 7;31(4):837-851.e10. doi: 10.1016/j.cmet.2020.03.003. Epub 2020 Mar 25.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32213346

2020

Szymczak S, Dose J, Torres GG, Heinsen FA, Venkatesh G, Datlinger P, Nygaard M, Mengel-From J, Flachsbart F, Klapper W, Christensen K, Lieb W, Schreiber S, Häsler R, Bock C, Franke A, Nebel A. DNA methylation QTL analysis identifies new regulators of human longevity. Hum Mol Genet. 2020 May 8;29(7):1154-1167. doi: 10.1093/hmg/ddaa033.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32160291

2020

Scherer M, Nebel A, Franke A, Walter J, Lengauer T, Bock C, Müller F, List M. Quantitative comparison of within-sample heterogeneity scores for DNA methylation data. Nucleic Acids Res. 2020 May 7;48(8):e46. doi: 10.1093/nar/gkaa120.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32103242

2020

Preglej T, Hamminger P, Luu M, Bulat T, Andersen L, Göschl L, Stolz V, Rica R, Sandner L, Waltenberger D, Tschismarov R, Faux T, Boenke T, Laiho A, Elo LL, Sakaguchi S, Steiner G, Decker T, Bohle B, Visekruna A, Bock C, Strobl B, Seiser C, Boucheron N, Ellmeier W. Histone deacetylases 1 and 2 restrain CD4+ cytotoxic T lymphocyte differentiation. JCI Insight. 2020 Feb 27;5(4):e133393. doi: 10.1172/jci.insight.133393.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32102981

2020

Delacher M, Imbusch CD, Hotz-Wagenblatt A, Mallm JP, Bauer K, Simon M, Riegel D, Rendeiro AF, Bittner S, Sanderink L, Pant A, Schmidleithner L, Braband KL, Echtenachter B, Fischer A, Giunchiglia V, Hoffmann P, Edinger M, Bock C, Rehli M, Brors B, Schmidl C, Feuerer M. Precursors for Nonlymphoid-Tissue Treg Cells Reside in Secondary Lymphoid Organs and Are Programmed by the Transcription Factor BATF. Immunity. 2020 Feb 18;52(2):295-312.e11. doi: 10.1016/j.immuni.2019.12.002. Epub 2020 Jan 7.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31924477

2020

Korchynska S, Krassnitzer M, Malenczyk K, Prasad RB, Tretiakov EO, Rehman S, Cinquina V, Gernedl V, Farlik M, Petersen J, Hannes S, Schachenhofer J, Reisinger SN, Zambon A, Asplund O, Artner I, Keimpema E, Lubec G, Mulder J, Bock C, Pollak DD, Romanov RA, Pifl C, Groop L, Hökfelt TG, Harkany T. Life-long impairment of glucose homeostasis upon prenatal exposure to psychostimulants. EMBO J. 2020 Jan 2;39(1):e100882. doi: 10.15252/embj.2018100882. Epub 2019 Nov 21.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31750562

2020

Ilott NE, Bollrath J, Danne C, Schiering C, Shale M, Adelmann K, Krausgruber T, Heger A, Sims D, Powrie F. Correction: Defining the microbial transcriptional response to colitis through integrated host and microbiome profiling. ISME J. 2020 Mar;14(3):879. doi: 10.1038/s41396-019-0539-0. Erratum for: ISME J. 2016 Oct;10(10):2389-404.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31748709

2020

Rojahn TB, Vorstandlechner V, Krausgruber T, Bauer WM, Alkon N, Bangert C, Thaler FM, Sadeghyar F, Fortelny N, Gernedl V, Rindler K, Elbe-Bürger A, Bock C, Mildner M, Brunner PM. Single-cell transcriptomics combined with interstitial fluid proteomics defines cell-type-specific immune regulation in atopic dermatitis. J Allergy Clin Immunol. 2020 Apr 25:S0091-6749(20)30556-X. doi: 10.1016/j.jaci.2020.03.041. Epub ahead of print.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32344053

2020

Strobl J, Pandey RV, Krausgruber T, Kleissl L, Reininger B, Herac M, Bayer N, Krall C, Wohlfarth P, Mitterbauer M, Kalhs P, Rabitsch W, Bock C, Hopfinger G, Stary G. Anti-Apoptotic Molecule BCL2 Is a Therapeutic Target in Steroid- Refractory Graft-Versus-Host Disease. J Invest Dermatol. 2020 Apr 2:S0022-202X(20)31252-5. doi: 10.1016/j.jid.2020.02.029. Epub ahead of print.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32247860

2020

Quijada-Álamo M, Hernández-Sánchez M, Alonso-Pérez V, Rodríguez-Vicente AE, García-Tuñón I, Martín-Izquierdo M, Hernández-Sánchez JM, Herrero AB, Bastida JM, San Segundo L, Gruber M, García JL, Yin S, Ten Hacken E, Benito R, Ordóñez JL, Wu CJ, Hernández-Rivas JM. CRISPR/Cas9-generated models uncover therapeutic vulnerabilities of del(11q) CLL cells to dual BCR and PARP inhibition. Leukemia. 2020 Jan 23. doi: 10.1038/s41375-020-0714-3. Epub ahead of print.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31974435

2020

Cinquina V, Calvigioni D, Farlik M, Halbritter F, Fife-Gernedl V, Shirran SL, Fuszard MA, Botting CH, Poullet P, Piscitelli F, Máté Z, Szabó G, Yanagawa Y, Kasper S, Di Marzo V, Mackie K, McBain CJ, Bock C, Keimpema E, Harkany T. Life-long epigenetic programming of cortical architecture by maternal 'Western' diet during pregnancy. Mol Psychiatry. 2020 Jan;25(1):22-36. doi: 10.1038/s41380-019-0580-4. Epub 2019 Nov 18.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31735910

2020

Jühling F, Hamdane N, Crouchet E, Li S, El Saghire H, Mukherji A, Fujiwara N, Oudot MA, Thumann C, Saviano A, Roca Suarez AA, Goto K, Masia R, Sojoodi M, Arora G, Aikata H, Ono A, Tabrizian P, Schwartz M, Polyak SJ, Davidson I, Schmidl C, Bock C, Schuster C, Chayama K, Pessaux P, Tanabe KK, Hoshida Y, Zeisel MB, Duong FH, Fuchs BC, Baumert TF. Targeting clinical epigenetic reprogramming for chemoprevention of metabolic and viral hepatocellular carcinoma. Gut. 2020 Mar 26:gutjnl-2019-318918. doi: 10.1136/gutjnl-2019-318918. Epub ahead of print.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32217639

2020

Marquina-Sanchez B, Fortelny N, Farlik M, Vieira A, Collombat P, Bock C, Kubicek S. Single-cell RNA-seq with spike-in cells enables accurate quantification of cell-specific drug effects in pancreatic islets. Genome Biol. 2020 May 6;21(1):106. doi: 10.1186/s13059-020-02006-2.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/32375897

2019

Yi G, Wierenga ATJ, Petraglia F, Narang P, Janssen-Megens EM, Mandoli A, Merkel A, Berentsen K, Kim B, Matarese F, Singh AA, Habibi E, Prange KHM, Mulder AB, Jansen JH, Clarke L, Heath S, van der Reijden BA, Flicek P, Yaspo ML, Gut I, Bock C, Schuringa JJ, Altucci L, Vellenga E, Stunnenberg HG, Martens JHA. Chromatin-Based Classification of Genetically Heterogeneous AMLs into Two Distinct Subtypes with Diverse Stemness Phenotypes. Cell Rep. 2019;26(4):1059–1069.e6. doi:10.1016/j.celrep.2018.12.098
Abstract: https://pubmed.ncbi.nlm.nih.gov/30673601/

2019

Uras IZ, Maurer B, Nivarthi H, Jodl P, Kollmann K, Prchal-Murphy M, Milosevic Feenstra JD, Zojer M, Lagger S, Grausenburger R, Grabner B, Holly R, Kavirayani A, Bock C, Gisslinger H, Valent P, Kralovics R, Sexl V. CDK6 coordinates JAK2V617F mutant MPN via NF-κB and apoptotic networks. Blood. 2019;133(15):1677–1690. doi:10.1182/blood-2018-08-872648
Abstract: https://pubmed.ncbi.nlm.nih.gov/30635286/

2019

Ulz P, Perakis S, Zhou Q, Moser T, Belic J, Lazzeri I, Wölfler A, Zebisch A, Gerger A, Pristauz G, Petru E, White B, Roberts CES, John JS, Schimek MG, Geigl JB, Bauernhofer T, Sill H, Bock C, Heitzer E, Speicher MR. Inference of transcription factor binding from cell-free DNA enables tumor subtype prediction and early detection. Nat Commun. 2019;10(1):4666. Published 2019 Oct 11. doi:10.1038/s41467-019-12714-4
Abstract: https://pubmed.ncbi.nlm.nih.gov/31604930/

2019

Schick S, Rendeiro AF, Runggatscher K, Ringler A, Boidol B, Hinkel M, Májek P, Vulliard L, Penz T, Parapatics K, Schmidl C, Menche J, Boehmelt G, Petronczki M, Müller AC, Bock C, Kubicek S. Systematic characterization of BAF mutations provides insights into intracomplex synthetic lethalities in human cancers. Nat Genet. 2019;51(9):1399–1410. doi:10.1038/s41588-019-0477-9
Abstract: https://pubmed.ncbi.nlm.nih.gov/31427792/

2019

Piper CJM, Rosser EC, Oleinika K, Nistala K, Krausgruber T, Rendeiro AF, Banos A, Drozdov I, Villa M, Thomson S, Xanthou G, Bock C, Stockinger B, Mauri C. Aryl Hydrocarbon Receptor Contributes to the Transcriptional Program of IL-10-Producing Regulatory B Cells. Cell Rep. 2019;29(7):1878–1892.e7. doi:10.1016/j.celrep.2019.10.018
Abstract: https://pubmed.ncbi.nlm.nih.gov/31722204/

2019

Miragaia RJ, Gomes T, Chomka A, Jardine L, Riedel A, Hegazy AN, Whibley N, Tucci A, Chen X, Lindeman I, Emerton G, Krausgruber T, Shields J, Haniffa M, Powrie F, Teichmann SA. Single-Cell Transcriptomics of Regulatory T Cells Reveals Trajectories of Tissue Adaptation. Immunity. 2019 Feb 19;50(2):493-504.e7. doi: 10.1016/j.immuni.2019.01.001.
Abstract: https://pubmed.ncbi.nlm.nih.gov/30737144/

2019

Korchynska S, Krassnitzer M, Malenczyk K, Prasad RB, Tretiakov EO, Rehman S, Cinquina V, Gernedl V, Farlik M, Petersen J, Hannes S, Schachenhofer J, Reisinger SN, Zambon A, Asplund O, Artner I, Keimpema E, Lubec G, Mulder J, Bock C, Pollak DD, Romanov RA, Pifl C, Groop L, Hökfelt TG, Harkany T. Life-long impairment of glucose homeostasis upon prenatal exposure to psychostimulants [published online ahead of print, 2019 Nov 21]. EMBO J. 2019;e100882. doi:10.15252/embj.2018100882
Abstract: https://pubmed.ncbi.nlm.nih.gov/31750562/

2019

Halbritter F, Farlik M, Schwentner R, Jug G, Fortelny N, Schnöller T, Pisa H, Schuster LC, Reinprecht A, Czech T, Gojo J, Holter W, Minkov M, Bauer W, Simonitsch-Klupp I, Bock C, Hutter C. Epigenomics and Single-Cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis. Cancer Discov. 2019 Oct;9(10):1406-1421. doi: 10.1158/2159-8290.CD-19-0138.
Abstract: https://pubmed.ncbi.nlm.nih.gov/31345789/

2019

Gusach A, Luginina A, Marin E, Brouillette RL, Besserer-Offroy É, Longpré JM, Ishchenko A, Popov P, Patel N, Fujimoto T, Maruyama T, Stauch B, Ergasheva M, Romanovskaia D, Stepko A, Kovalev K, Shevtsov M, Gordeliy V, Han GW, Katritch V, Borshchevskiy V, Sarret P, Mishin A, Cherezov V. Structural basis of ligand selectivity and disease mutations in cysteinyl leukotriene receptors. Nat Commun. 2019 Dec 6;10(1):5573. doi: 10.1038/s41467-019-13348-2.
Abstract: https://pubmed.ncbi.nlm.nih.gov/31811124/

2019

Griss J, Bauer W, Wagner C, Simon M, Chen M, Grabmeier-Pfistershammer K, Maurer-Granofszky M, Roka F, Penz T, Bock C, Zhang G, Herlyn M, Glatz K, Läubli H, Mertz KD, Petzelbauer P, Wiesner T, Hartl M, Pickl WF, Somasundaram R, Steinberger P, Wagner SN. B cells sustain inflammation and predict response to immune checkpoint blockade in human melanoma. Nat Commun. 2019;10(1):4186. Published 2019 Sep 13. doi:10.1038/s41467-019-12160-2
Abstract: https://pubmed.ncbi.nlm.nih.gov/31519915/

2019

Ferreira da Silva J, Salic S, Wiedner M, Datlinger P, Essletzbichler P, Hanzl A, Superti-Furga G, Bock C, Winter G, Loizou JI. Genome-scale CRISPR screens are efficient in non-homologous end-joining deficient cells. Sci Rep. 2019 Oct 31;9(1):15751. doi: 10.1038/s41598-019-52078-9.
Abstract: https://pubmed.ncbi.nlm.nih.gov/31673055/

2019

Di Giacomo AM, Covre A, Finotello F, Rieder D, Danielli R, Sigalotti L, Giannarelli D, Petitprez F, Lacroix L, Valente M, Cutaia O, Fazio C, Amato G, Lazzeri A, Monterisi S, Miracco C, Coral S, Anichini A, Bock C, Nemc A, Oganesian A, Lowder J, Azab M, Fridman WH, Sautès-Fridman C, Trajanoski Z, Maio M. Guadecitabine Plus Ipilimumab in Unresectable Melanoma: The NIBIT-M4 Clinical Trial. Clin Cancer Res. 2019;25(24):7351–7362. doi:10.1158/1078-0432.CCR-19-1335
Abstract: https://pubmed.ncbi.nlm.nih.gov/31530631/

2019

Barthel FP, Johnson KC, Varn FS, Moskalik AD, Tanner G, Kocakavuk E, Anderson KJ, Abiola O, Aldape K, Alfaro KD, Alpar D, Amin SB, Ashley DM, Bandopadhayay P, Barnholtz-Sloan JS, Beroukhim R, Bock C, Brastianos PK, Brat DJ, Brodbelt AR, Bruns AF, Bulsara KR, Chakrabarty A, Chakravarti A, Chuang JH, Claus EB, Cochran EJ, Connelly J, Costello JF, Finocchiaro G, Fletcher MN, French PJ, Gan HK, Gilbert MR, Gould PV, Grimmer MR, Iavarone A, Ismail A, Jenkinson MD, Khasraw M, Kim H, Kouwenhoven MCM, LaViolette PS, Li M, Lichter P, Ligon KL, Lowman AK, Malta TM, Mazor T, McDonald KL, Molinaro AM, Nam DH, Nayyar N, Ng HK, Ngan CY, Niclou SP, Niers JM, Noushmehr H, Noorbakhsh J, Ormond DR, Park CK, Poisson LM, Rabadan R, Radlwimmer B, Rao G, Reifenberger G, Sa JK, Schuster M, Shaw BL, Short SC, Smitt PAS, Sloan AE, Smits M, Suzuki H, Tabatabai G, Van Meir EG, Watts C, Weller M, Wesseling P, Westerman BA, Widhalm G, Woehrer A, Yung WKA, Zadeh G, Huse JT, De Groot JF, Stead LF, Verhaak RGW; GLASS Consortium. Barthel FP, Johnson KC, Varn FS, et al. Longitudinal molecular trajectories of diffuse glioma in adults. Nature. 2019;576(7785):112–120. doi:10.1038/s41586-019-1775-1
Abstract: https://pubmed.ncbi.nlm.nih.gov/31748746/

2019

Andersen L, Gülich AF, Alteneder M, Preglej T, Orola MJ, Dhele N, Stolz V, Schebesta A, Hamminger P, Hladik A, Floess S, Krausgruber T, Faux T, Andrabi SBA, Huehn J, Knapp S, Sparwasser T, Bock C, Laiho A, Elo LL, Rasool O, Lahesmaa R, Sakaguchi S, Ellmeier W. The Transcription Factor MAZR/PATZ1 Regulates the Development of FOXP3+ Regulatory T Cells. Cell Rep. 2019;29(13):4447–4459.e6. doi:10.1016/j.celrep.2019.11.089
Abstract: https://pubmed.ncbi.nlm.nih.gov/31875552/

2020

Rendeiro AF, Krausgruber T, Fortelny N, Zhao F, Penz T, Farlik M, Schuster LC, Nemc A, Tasnády S, Réti M, Mátrai Z, Alpár D, Bödör C, Schmidl C, Bock C. Chromatin mapping and single-cell immune profiling define the temporal dynamics of ibrutinib response in CLL. Nat Commun. 2020 Jan 29;11(1):577. doi: 10.1038/s41467-019-14081-6.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31996669

2019

van Mierlo G, Dirks RAM, De Clerck L, Brinkman AB, Huth M, Kloet SL, Saksouk N, Kroeze LI, Willems S, Farlik M, Bock C, Jansen JH, Deforce D, Vermeulen M,Déjardin J, Dhaenens M, Marks H. Integrative Proteomic Profiling RevealsPRC2-Dependent Epigenetic Crosstalk Maintains Ground-State Pluripotency. CellStem Cell. 2019 Jan 3;24(1):123-137.e8. doi: 10.1016/j.stem.2018.10.017. Epub2018 Nov 21.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30472157

2019

Soldatov R, Kaucka M, Kastriti ME, Petersen J, Chontorotzea T, Englmaier L,Akkuratova N, Yang Y, Häring M, Dyachuk V, Bock C, Farlik M, Piacentino ML,Boismoreau F, Hilscher MM, Yokota C, Qian X, Nilsson M, Bronner ME, Croci L,Hsiao WY, Guertin DA, Brunet JF, Consalez GG, Ernfors P, Fried K, Kharchenko PV, Adameyko I. Spatiotemporal structure of cell fate decisions in murine neural crest. Science. 2019 Jun 7;364(6444). pii: eaas9536. doi:10.1126/science.aas9536.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31171666

2019

Singh DD, Hawkins RD, Lahesmaa R, Tripathi SK. CRISPR/Cas9 guided genome and epigenome engineering and its therapeutic applications in immune mediated diseases. Semin Cell Dev Biol. 2019 Jun 19. pii: S1084-9521(18)30111-3. doi:10.1016/j.semcdb.2019.05.007. [Epub ahead of print] Review.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31112800

2019

Simonović N, Witalisz-Siepracka A, Meissl K, Lassnig C, Reichart U, Kolbe T, Farlik M, Bock C, Sexl V, Müller M, Strobl B. NK Cells Require Cell-Extrinsic and -Intrinsic TYK2 for Full Functionality in Tumor Surveillance and Antibacterial Immunity. J Immunol. 2019 Mar 15;202(6):1724-1734. doi: 10.4049/jimmunol.1701649.Epub 2019 Feb 4.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30718299

2019

Sdelci S, Rendeiro AF, Rathert P, You W, Lin JG, Ringler A, Hofstätter G,Moll HP, Gürtl B, Farlik M, Schick S, Klepsch F, Oldach M, Buphamalai P,Schischlik F, Májek P, Parapatics K, Schmidl C, Schuster M, Penz T, Buckley DL,Hudecz O, Imre R, Wang SY, Maric HM, Kralovics R, Bennett KL, Müller AC, MechtlerK, Menche J, Bradner JE, Winter GE, Klavins K, Casanova E, Bock C, Zuber J,Kubicek S. MTHFD1 interaction with BRD4 links folate metabolism to transcriptional regulation. Nat Genet. 2019 Jun;51(6):990-998. doi:10.1038/s41588-019-0413-z. Epub 2019 May 27.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31133746

2019

Schmidl C, Vladimer GI, Rendeiro AF, Schnabl S, Krausgruber T, Taubert C,Krall N, Pemovska T, Araghi M, Snijder B, Hubmann R, Ringler A, Runggatscher K,Demirtas D, de la Fuente OL, Hilgarth M, Skrabs C, Porpaczy E, Gruber M, HoermannG, Kubicek S, Staber PB, Shehata M, Superti-Furga G, Jäger U, Bock C. Combined chemosensitivity and chromatin profiling prioritizes drug combinations in CLL. Nat Chem Biol. 2019 Mar;15(3):232-240. doi: 10.1038/s41589-018-0205-2. Epub 2019 Jan 28.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30692684

2019

Schischlik F, Jäger R, Rosebrock F, Hug E, Schuster M, Holly R, Fuchs E,Milosevic Feenstra JD, Bogner E, Gisslinger B, Schalling M, Rumi E, Pietra D,Fischer G, Faé I, Vulliard L, Menche J, Haferlach T, Meggendorfer M, Stengel A,Bock C, Cazzola M, Gisslinger H, Kralovics R. Mutational landscape of the transcriptome offers putative targets for immunotherapy of myeloproliferative neoplasms. Blood. 2019 Jul 11;134(2):199-210. doi: 10.1182/blood.2019000519. Epub2019 May 7.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31064751

2019

Puhm F, Afonyushkin T, Resch U, Obermayer G, Rohde M, Penz T, Schuster M,Wagner G, Rendeiro AF, Melki I, Kaun C, Wojta J, Bock C, Jilma B, Mackman N,Boilard E, Binder CJ. Mitochondria Are a Subset of Extracellular Vesicles Released by Activated Monocytes and Induce Type I IFN and TNF Responses in Endothelial Cells. Circ Res. 2019 Jun 21;125(1):43-52. doi:10.1161/CIRCRESAHA.118.314601. Epub 2019 May 8.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31219742

2019

Müller F, Scherer M, Assenov Y, Lutsik P, Walter J, Lengauer T, Bock C. RnBeads 2.0: comprehensive analysis of DNA methylation data. Genome Biol. 2019Mar 14;20(1):55. doi: 10.1186/s13059-019-1664-9.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30871603

2019

Kosack L, Wingelhofer B, Popa A, Orlova A, Agerer B, Vilagos B, Majek P,Parapatics K, Lercher A, Ringler A, Klughammer J, Smyth M, Khamina K, Baazim H,de Araujo ED, Rosa DA, Park J, Tin G, Ahmar S, Gunning PT, Bock C, Siddle HV,Woods GM, Kubicek S, Murchison EP, Bennett KL, Moriggl R, Bergthaler A. The ERBB-STAT3 Axis Drives Tasmanian Devil Facial Tumor Disease. Cancer Cell. 2019Jan 14;35(1):125-139.e9. doi: 10.1016/j.ccell.2018.11.018.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30645971

2019

Kanduri C, Bock C, Gundersen S, Hovig E, Sandve GK. Colocalization analysesof genomic elements: approaches, recommendations and challenges. Bioinformatics. 2019 May 1;35(9):1615-1624. doi: 10.1093/bioinformatics/bty835. PubMed PMID:30307532;
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/6499241

2019

Hamdane N, Jühling F, Crouchet E, El Saghire H, Thumann C, Oudot MA, BandieraS, Saviano A, Ponsolles C, Roca Suarez AA, Li S, Fujiwara N, Ono A, Davidson I,Bardeesy N, Schmidl C, Bock C, Schuster C, Lupberger J, Habersetzer F, Doffoël M,Piardi T, Sommacale D, Imamura M, Uchida T, Ohdan H, Aikata H, Chayama K,Boldanova T, Pessaux P, Fuchs BC, Hoshida Y, Zeisel MB, Duong FHT, Baumert TF. HCV-Induced Epigenetic Changes Associated With Liver Cancer Risk Persist After Sustained Virologic Response. Gastroenterology. 2019 Jun;156(8):2313-2329.e7.doi: 10.1053/j.gastro.2019.02.038. Epub 2019 Mar 2.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30836093

2019

Gruber M, Bozic I, Leshchiner I, Livitz D, Stevenson K, Rassenti L, RosebrockD, Taylor-Weiner A, Olive O, Goyetche R, Fernandes SM, Sun J, Stewart C, Wong A, Cibulskis C, Zhang W, Reiter JG, Gerold JM, Gribben JG, Rai KR, Keating MJ, BrownJR, Neuberg D, Kipps TJ, Nowak MA, Getz G, Wu CJ. Growth dynamics in naturally progressing chronic lymphocytic leukaemia. Nature. 2019 Jun;570(7762):474-479.doi: 10.1038/s41586-019-1252-x. Epub 2019 May 29.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/31142838

2018

Klughammer J, Kiesel B, Roetzer T, Fortelny N, Nemc A, Nenning KH, Furtner J, Sheffield NC, Datlinger P, Peter N, Nowosielski M, Augustin M, Mischkulnig M, Ströbel T, Alpar D, Ergüner B, Senekowitsch M, Moser P, Freyschlag CF, Kerschbaumer J, Thomé C, Grams AE, Stockhammer G, Kitzwoegerer M, Oberndorfer S, Marhold F, Weis S, Trenkler J, Buchroithner J, Pichler J, Haybaeck J, Krassnig S, Mahdy Ali K, von Campe G, Payer F, Sherif C, Preiser J, Hauser T, Winkler PA, Kleindienst W, Würtz F, Brandner-Kokalj T, Stultschnig M, Schweiger S, Dieckmann K, Preusser M, Langs G, Baumann B, Knosp E, Widhalm G, Marosi C, Hainfellner JA, Woehrer A, Bock C. The DNA methylation landscape of glioblastoma disease progression shows extensive heterogeneity in time and space. Nat Med. 2018 Oct;24(10):1611-1624. doi: 10.1038/s41591-018-0156-x. Epub 2018 Aug 27.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30150718

2018

Kanduri C, Bock C, Gundersen S, Hovig E, Sandve GK. Colocalization analyses of genomic elements: approaches, recommendations and challenges. Bioinformatics. 2018 Oct 11. doi: 10.1093/bioinformatics/bty835. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30307532

2018

Baumgartner C, Toifl S, Farlik M, Halbritter F, Scheicher R, Fischer I, Sexl V, Bock C, Baccarini M. An ERK-Dependent Feedback Mechanism Prevents Hematopoietic Stem Cell Exhaustion. Cell Stem Cell. 2018 Jun 1;22(6):879-892.e6. doi: 10.1016/j.stem.2018.05.003. Epub 2018 May 24.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29804890

2018

Barakat TS, Halbritter F, Zhang M, Rendeiro AF, Perenthaler E, Bock C, Chambers I. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Cell Stem Cell. 2018 Aug 2;23(2):276-288.e8. doi: 10.1016/j.stem.2018.06.014. Epub 2018 Jul 19.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/30033119

2018

Göschl L, Preglej T, Hamminger P, Bonelli M, Andersen L, Boucheron N, Gülich AF, Müller L, Saferding V, Mufazalov IA, Hirahara K, Seiser C, Matthias P, Penz T, Schuster M, Bock C, Waisman A, Steiner G, Ellmeier W. A T cell-specific deletion of HDAC1 protects against experimental autoimmune encephalomyelitis. J Autoimmun. 2018 Jan;86:51-61. doi: 10.1016/j.jaut.2017.09.008. Epub 2017 Sep 28.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28964722

2018

Pham HTT, Maurer B, Prchal-Murphy M, Grausenburger R, Grundschober E, Javaheri T, Nivarthi H, Boersma A, Kolbe T, Elabd M, Halbritter F, Pencik J, Kazemi Z, Grebien F, Hengstschläger M, Kenner L, Kubicek S, Farlik M, Bock C, Valent P, Müller M, Rülicke T, Sexl V, Moriggl R. STAT5BN642H is a driver mutation for T cell neoplasia. J Clin Invest. 2018 Jan 2;128(1):387-401. doi: 10.1172/JCI94509. Epub 2017 Dec 4.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29200404

2018

Aldape K, Amin SB, Ashley DM, Barnholtz-Sloan JS, Bates AJ, Beroukhim R, Bock C, Brat DJ, Claus EB, Costello JF, de Groot JF, Finocchiaro G, French PJ, Gan HK, Griffith B, Herold-Mende CC, Horbinski C, Iavarone A, Kalkanis SN, Karabatsou K, Kim H, Kouwenhoven MCM, McDonald KL, Miletic H, Nam DH, Ng HK, Niclou SP, Noushmehr H, Ormond R, Poisson LM, Reifenberger G, Roncaroli F, Sa JK, Sillevis Smitt PAE, Smits M, Souza CF, Tabatabai G, Van Meir EG, Verhaak RGW, Watts C, Wesseling P, Woehrer A, Yung WKA, Jungk C, Hau AC, van Dyck E, Westerman BA, Yin J, Abiola O, Zeps N, Grimmond S, Buckland M, Khasraw M, Sulman EP, Muscat AM, Stead L; GLASS Consortium. Glioma Through the Looking GLASS: Molecular Evolution of Diffuse Gliomas and the Glioma Longitudinal AnalySiS Consortium. Neuro Oncol. 2018 Feb 8. doi: 10.1093/neuonc/noy020. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29432615

2018

Skjærven KH, Jakt LM, Fernandes JMO, Dahl JA, Adam AC, Klughammer J, Bock C, Espe M. Parental micronutrient deficiency distorts liver DNA methylation and expression of lipid genes associated with a fatty-liver-like phenotype in offspring. Sci Rep. 2018 Feb 14;8(1):3055. doi: 10.1038/s41598-018-21211-5.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29445184

2018

Lowe R, Barton C, Jenkins CA, Ernst C, Forman O, Fernandez-Twinn DS, Bock C, Rossiter SJ, Faulkes CG, Ozanne SE, Walter L, Odom DT, Mellersh C, Rakyan VK. Ageing-associated DNA methylation dynamics are a molecular readout of lifespan variation among mammalian species. Genome Biol. 2018 Feb 16;19(1):22. doi: 10.1186/s13059-018-1397-1.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29452591

2018

Lawson JT, Tomazou EM, Bock C, Sheffield NC. MIRA: An R package for DNA methylation-based inference of regulatory activity. Bioinformatics. 2018 Mar 1. doi: 10.1093/bioinformatics/bty083. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29506020

2018

Simovski B, Kanduri C, Gundersen S, Titov D, Domanska D, Bock C, Bossini-Castillo L, Chikina M, Favorov A, Layer RM, Mironov AA, Quinlan AR, Sheffield NC, Trynka G, Sandve GK. Coloc-stats: a unified web interface to perform colocalization analysis of genomic features. Nucleic Acids Res. 2018 Jun 5. doi: 10.1093/nar/gky474. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29873782

2018

Bellutti F, Tigan AS, Nebenfuehr S, Dolezal M, Zojer M, Grausenburger R, Hartenberger S, Kollmann S, Doma E, Prchal-Murphy M, Uras IZ, Höllein A, Neuberg DS, Ebert BL, Ringler A, Mueller AC, Loizou JI, Hinds PW, Vogl C, Heller G, Kubicek S, Zuber J, Malumbres M, Farlik M, Villunger A, Kollmann K, Sexl V. CDK6 antagonizes p53-induced responses during tumorigenesis. Cancer Discov. 2018 Jun 13. pii: CD-17-0912. doi: 10.1158/2159-8290.CD-17-0912. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29899063

2017

Vesely C, Frech C, Eckert C, Cario G, Mecklenbräuker A, Zur Stadt U, Nebral K, Kraler F, Fischer S, Attarbaschi A, Schuster M, Bock C, Cavé H, von Stackelberg A, Schrappe M, Horstmann MA, Mann G, Haas OA, Panzer-Grümayer R. Genomic and transcriptional landscape of P2RY8-CRLF2-positive childhood acute lymphoblastic leukemia. Leukemia. 2017 Jul;31(7):1491-1501. doi: 10.1038/leu.2016.365. Epub 2016 Nov 30.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/27899802

2017

Busch CJ, Hendrikx T, Weismann D, Jäckel S, Walenbergh SM, Rendeiro AF, Weißer J, Puhm F, Hladik A, Göderle L, Papac-Milicevic N, Haas G, Millischer V, Subramaniam S, Knapp S, Bennett KL, Bock C, Reinhardt C, Shiri-Sverdlov R, Binder CJ. Malondialdehyde epitopes are sterile mediators of hepatic inflammation in hypercholesterolemic mice. Hepatology. 2017 Apr;65(4):1181-1195. doi: 10.1002/hep.28970. Epub 2017 Feb 3.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/27981604

2017

Romanov RA, Zeisel A, Bakker J, Girach F, Hellysaz A, Tomer R, Alpár A, Mulder J, Clotman F, Keimpema E, Hsueh B, Crow AK, Martens H, Schwindling C, Calvigioni D, Bains JS, Máté Z, Szabó G, Yanagawa Y, Zhang MD, Rendeiro A, Farlik M, Uhlén M, Wulff P, Bock C, Broberger C, Deisseroth K, Hökfelt T, Linnarsson S, Horvath TL, Harkany T. Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes. Nat Neurosci. 2017 Feb;20(2):176-188. doi: 10.1038/nn.4462. Epub 2016 Dec 19.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/27991900

2017

Klughammer J, Dittrich M, Blom J, Mitesser V, Vogel U, Frosch M, Goesmann A, Müller T, Schoen C. Comparative Genome Sequencing Reveals Within-Host Genetic Changes in Neisseria meningitidis during Invasive Disease. PLoS One. 2017 Jan 12;12(1):e0169892. doi: 10.1371/journal.pone.0169892. eCollection 2017.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28081260

2017

Datlinger P, Rendeiro AF, Schmidl C, Krausgruber T, Traxler P, Klughammer J, Schuster LC, Kuchler A, Alpar D, Bock C. Pooled CRISPR screening with single-cell transcriptome readout. Nat Methods. 2017 Mar;14(3):297-301. doi: 10.1038/nmeth.4177. Epub 2017 Jan 18.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28099430

2017

Sheffield NC, Pierron G, Klughammer J, Datlinger P, Schönegger A, Schuster M, Hadler J, Surdez D, Guillemot D, Lapouble E, Freneaux P, Champigneulle J, Bouvier R, Walder D, Ambros IM, Hutter C, Sorz E, Amaral AT, de Álava E, Schallmoser K, Strunk D, Rinner B, Liegl-Atzwanger B, Huppertz B, Leithner A, de Pinieux G, Terrier P, Laurence V, Michon J, Ladenstein R, Holter W, Windhager R, Dirksen U, Ambros PF, Delattre O, Kovar H, Bock C, Tomazou EM. DNA methylation heterogeneity defines a disease spectrum in Ewing sarcoma. Nat Med. 2017 Mar;23(3):386-395. doi: 10.1038/nm.4273. Epub 2017 Jan 30.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28134926

2017

Albrecht F, List M, Bock C, Lengauer T. DeepBlueR: large-scale epigenomic analysis in R. Bioinformatics. 2017 Jul 1;33(13):2063-2064. doi: 10.1093/bioinformatics/btx099.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28334349

2017

Maurer B, Farlik M, Sexl V. It is a differentiation game: STAT5 in a new role. Cell Death Differ. 2017 Jun;24(6):953-954. doi: 10.1038/cdd.2017.71. Epub 2017 May 12. No abstract available.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28498368

2017

Müller H, Jimenez-Heredia R, Krolo A, Hirschmugl T, Dmytrus J, Boztug K, Bock C. VCF.Filter: interactive prioritization of disease-linked genetic variants from sequencing data. Nucleic Acids Res. 2017 May 17. doi: 10.1093/nar/gkx425. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28520890

2017

Licciardello MP, Ringler A, Markt P, Klepsch F, Lardeau CH, Sdelci S, Schirghuber E, Müller AC, Caldera M, Wagner A, Herzog R, Penz T, Schuster M, Boidol B, Dürnberger G, Folkvaljon Y, Stattin P, Ivanov V, Colinge J, Bock C, Kratochwill K, Menche J, Bennett KL, Kubicek S. A combinatorial screen of the CLOUD uncovers a synergy targeting the androgen receptor. Nat Chem Biol. 2017 Jul;13(7):771-778. doi: 10.1038/nchembio.2382. Epub 2017 May 22.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28530711

2017

Fogg CN, Kovats DE, Berger B. 2017 ISCB Overton Prize: Christoph Bock. F1000Res. 2017 Jun 26;6. pii: ISCB Comm J-999. doi: 10.12688/f1000research.11586.1. eCollection 2017.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28713546

2017

Andergassen D, Dotter CP, Wenzel D, Sigl V, Bammer PC, Muckenhuber M, Mayer D, Kulinski TM, Theussl HC, Penninger JM, Bock C, Barlow DP, Pauler FM, Hudson QJ. Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression. Elife. 2017 Aug 14;6. pii: e25125. doi: 10.7554/eLife.25125.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28806168

2017

Göschl L, Preglej T, Hamminger P, Bonelli M, Andersen L, Boucheron N, Gülich AF, Müller L, Saferding V, Mufazalov IA, Hirahara K, Seiser C, Matthias P, Penz T, Schuster M, Bock C, Waisman A, Steiner G, Ellmeier W. A T cell-specific deletion of HDAC1 protects against experimental autoimmune encephalomyelitis. J Autoimmun. 2017 Sep 27. pii: S0896-8411(17)30595-4. doi: 10.1016/j.jaut.2017.09.008. [Epub ahead of print]
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/28964722

2017

Moder M, Velimezi G, Owusu M, Mazouzi A, Wiedner M, Ferreira da Silva J, Robinson-Garcia L, Schischlik F, Slavkovsky R, Kralovics R, Schuster M, Bock C, Ideker T, Jackson SP, Menche J, Loizou JI. Parallel genome-wide screens identify synthetic viable interactions between the BLM helicase complex and Fanconi anemia. Nat Commun. 2017 Nov 1;8(1):1238. doi: 10.1038/s41467-017-01439-x.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/29089570

2016

Li J, Casteels T, Frogne T, Ingvorsen C, Honoré C, Courtney M, Huber KVM, Schmitner N, Kimmel RA, Romanov RA, Sturtzel C, Lardeau CH, Klughammer J, Farlik M, Sdelci S, Vieira A, Avolio F, Briand F, Baburin I, Májek P, Pauler FM, Penz T, Stukalov A, Gridling M, Parapatics K, Barbieux C, Berishvili E, Spittler A, Colinge J, Bennett KL, Hering S, Sulpice T, Bock C, Distel M, Harkany T, Meyer D, Superti-Furga G, Collombat P, Hecksher-Sørensen J, and Kubicek S. Artemisinins Target GABAA Receptor Signaling and Impair α Cell Identity, Cell 2017 Jan 12 (epub ahead of print 2016 Dec 1);168(1), 86-100. doi:10.1016/j.cell.2016.11.010.Abstract: http://www.cell.com/cell/abstract/S0092-8674(16)31531-8

2016

Kovar H, Amatruda J, Brunet E, Burdach S, Cidre-Aranaz F, de Alava E, Dirksen U, van der Ent W, Grohar P, Grünewald TG, Helman L, Houghton P, Iljin K, Korsching E, Ladanyi M, Lawlor E, Lessnick S, Ludwig J, Meltzer P, Metzler M, Mora J, Moriggl R, Nakamura T, Papamarkou T, Radic Sarikas B, Rédini F, Richter GH, Rossig C, Schadler K, Schäfer BW, Scotlandi K, Sheffield NC, Shelat A, Snaar-Jagalska E, Sorensen P, Stegmaier K, Stewart E, Sweet-Cordero A, Szuhai K, Tirado OM, Tirode F, Toretsky J, Tsafou K, Üren A, Zinovyev A, Delattre O. The second European interdisciplinary Ewing sarcoma research summit--A joint effort to deconstructing the multiple layers of a complex disease. Oncotarget. 2016 Feb 23;7(8):8613-24. doi: 10.18632/oncotarget.6937. Review.
Abstract: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4890991/

2016

Jeurissen ML, Walenbergh SM, Houben T, Gijbels MJ, Li J, Hendrikx T, Oligschlaeger Y, van Gorp PJ, Binder CJ, Donners MM, Shiri-Sverdlov R. Prevention of oxLDL uptake leads to decreased atherosclerosis in hematopoietic NPC1-deficient Ldlr-/- mice. Atherosclerosis. 2016 Oct 20;255:59-65. doi: 10.1016/j.atherosclerosis.2016.10.038
Abstract: http://www.atherosclerosis-journal.com/article/S0021-9150(16)31441-1/abstract

2016

Ilott NE, Bollrath J, Danne C, Schiering C, Shale M, Adelmann K, Krausgruber T, Heger A, Sims D, Powrie F. Defining the microbial transcriptional response to colitis through integrated host and microbiome profiling. ISME J. 2016 Oct;10(10):2389-404. doi: 10.1038/ismej.2016.40.
Abstract: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5030693/

2016

Farlik M, Halbritter F, Müller F, Choudry FA, Ebert P, Klughammer J, Farrow S, Santoro A, Ciaurro V, Mathur A, Uppal R, Stunnenberg HG, Ouwehand WH, Laurenti E, Lengauer T, Frontini M, Bock C. DNA Methylation Dynamics of Human Hematopoietic Stem Cell Differentiation. Cell Stem Cell. 2016 Dec 1;19(6):808-822. doi: 10.1016/j.stem.2016.10.019.
Abstract: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5145815/

2016

Bock C. Preserve personal freedom in networked societies. Nature. Commentary. 2016 Aug 31;537(7618):9. doi: 10.1038/537009a.
Abstract: http://www.nature.com/news/preserve-personal-freedom-in-networked-societies-1.20510

2016

Aken BL, Ayling S, Barrell D, Clarke L, Curwen V, Fairley S, Fernandez Banet J, Billis K, García Girón C, Hourlier T, Howe K, Kähäri A, Kokocinski F, Martin FJ, Murphy DN, Nag R, Ruffier M, Schuster M, Tang YA, Vogel JH, White S, Zadissa A, Flicek P, Searle SM. The Ensembl gene annotation system. Database (Oxford). 2016 Jun 23;2016. pii: baw093. doi: 10.1093/database/baw093.
Abstract: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4919035/

2016

Sdelci S, Lardeau CH, Tallant C, Klepsch F, Klaiber B, Bennett J, Rathert P, Schuster M, Penz T, Fedorov O, Superti-Furga G, Bock C, Zuber J, Huber KV, Knapp S, Müller S, Kubicek S. Mapping the chemical chromatin reactivation landscape identifies BRD4-TAF1 cross-talk. Nat Chem Biol. 2016 May 9. doi: 10.1038/nchembio.2080.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27159579

2016

Rendeiro AF, Schmidl C, Strefford JC, Walewska R, Davis Z, Farlik M, Oscier D, Bock C. Chromatin accessibility maps of chronic lymphocytic leukaemia identify subtype-specific epigenome signatures and transcription regulatory networks. Nat Commun. 2016 Jun 27;7:11938. doi: 10.1038/ncomms11938.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27346425

2016

Mass E, Ballesteros I, Farlik M, Halbritter F, Günther P, Crozet L, Jacome-Galarza CE, Händler K, Klughammer J, Kobayashi Y, Gomez-Perdiguero E, Schultze JL, Beyer M, Bock C, Geissmann F. Specification of tissue-resident macrophages during organogenesis. Science. 2016 Aug 4. pii: aaf4238.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27492475

2016

Martínez-Cardús A, Moran S, Musulen E, Moutinho C, Manzano JL, Martinez-Balibrea E, Tierno M, Élez E, Landolfi S, Lorden P, Arribas C, Müller F, Bock C, Tabernero J, Esteller M. Epigenetic Homogeneity Within Colorectal Tumors Predicts Shorter Relapse-free and Overall Survival Times for Patients With Loco-regional Cancer. Gastroenterology. 2016 Aug 10. doi: 10.1053/j.gastro.2016.08.001.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27521480

2016

Heller G, Topakian T, Altenberger C, Cerny-Reiterer S, Herndlhofer S, Ziegler B, Datlinger P, Byrgazov K, Bock C, Mannhalter C, Hörmann G, Sperr WR, Lion T, Zielinski CC, Valent P, Zöchbauer-Müller S. Next generation sequencing identifies major DNA methylation changes during progression of Ph+ chronic myeloid leukemia. Leukemia. 2016 May 23. doi: 10.1038/leu.2016.143.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27211271

2016

Gapp BV, Konopka T, Penz T, Dalal V, Bürckstümmer T, Bock C, Nijman SM. Parallel reverse genetic screening in mutant human cells using transcriptomics. Mol Syst Biol. 2016 Aug 1;12(8):879. doi: 10.15252/msb.20166890.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27482057

2016

Feichtinger J, Hernández I, Fischer C, Hanscho M, Auer N, Hackl M, Jadhav V, Baumann M, Krempl PM, Schmidl C, Farlik M, Schuster M, Merkel A, Sommer A, Heath S, Rico D, Bock C, Thallinger GG, Borth N. Comprehensive genome and epigenome characterization of CHO cells in response to evolutionary pressures and over time. Biotechnol Bioeng. 2016 Apr 12. doi: 10.1002/bit.25990.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27072894

2016

Bock C, Farlik M, Sheffield NC. Multi-Omics of Single Cells: Strategies and Applications. Trends Biotechnol. 2016 Aug;34(8):605-8. doi: 10.1016/j.tibtech.2016.04.004.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/27212022

2014

Assenov Y, Müller F, Lutsik P, Walter J, Lengauer T, Bock C. Comprehensive analysis of DNA methylation data with RnBeads. Nature Methods 11, 1138–1140 (2014) doi:10.1038/nmeth.3115.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25262207

2015

Sheffield NC, Bock C. LOLA: Enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor. Bioinformatics. 2015 Oct 27. pii: btv612.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/26508757

2015

Schmidl C, Rendeiro AF, Sheffield NC, Bock C. ChIPmentation: fast, robust, low-input ChIP-seq for histones and transcription factors. Nat Methods. 2015 Aug 17. doi: 10.1038/nmeth.3542.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/26280331

2015

Milosevic Feenstra JD, Nivarthi H, Gisslinger H, Leroy E, Rumi E, Chachoua I, Bagienski K, Kubesova B, Pietra D, Gisslinger B, Milanesi C, Jäger R, Chen D, Berg T, Schalling M, Schuster M, Bock C, Constantinescu SN, Cazzola M, Kralovics R. Whole exome sequencing identifies novel MPL and JAK2 mutations in triple negative myeloproliferative neoplasms. Blood. 2015 Sep 30. pii: blood-2015-07-661835.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/26423830

2015

Licciardello MP, Müllner MK, Dürnberger G, Kerzendorfer C, Boidol B, Trefzer C, Sdelci S, Berg T, Penz T, Schuster M, Bock C, Kralovics R, Superti-Furga G, Colinge J, Nijman SM, Kubicek S. NOTCH1 activation in breast cancer confers sensitivity to inhibition of SUMOylation. Oncogene. 2015 Jul;34(29):3780-90. doi: 10.1038/onc.2014.319. Epub 2014 Sep 29.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25263445

2015

Li J, Klughammer J, Farlik M, Penz T, Spittler A, Barbieux C, Berishvili E, Bock C, Kubicek S. Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types. EMBO Rep. 2016 Feb. Epub 2015 Dec 21.
Abstract: https://www.ncbi.nlm.nih.gov/pubmed/26691212

2015

Klughammer J, Datlinger P, Printz D, Sheffield NC, Farlik M, Hadler J, Fritsch G, Bock C. Differential DNA Methylation Analysis without a Reference Genome. Cell Rep. 2015 Dec 7. pii: S2211-1247(15)01324-8. doi: 10.1016/j.celrep.2015.11.024.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/26673328

2015

Andergassen D, Dotter CP, Kulinski TM, Guenzl PM, Bammer PC, Barlow DP, Pauler FM, Hudson QJ. Allelome.PRO, a pipeline to define allele-specific genomic features from high-throughput sequencing data. Nucleic Acids Res. 2015 Dec 2;43(21):e146. doi: 10.1093/nar/gkv727. Epub 2015 Jul 21.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/26202974

2015

Tomazou EM, Sheffield NC, Schmidl C, Schuster M, Schönegger A, Datlinger P, Kubicek S, Bock C, Kovar H. Epigenome Mapping Reveals Distinct Modes of Gene Regulation and Widespread Enhancer Reprogramming by the Oncogenic Fusion Protein EWS-FLI1. Cell Rep. 2015 Feb 24;10(7):1082-95. doi: 10.1016/j.celrep.2015.01.042. Epub 2015 Feb 19.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25704812

2015

Malinowska-Ozdowy K, Frech C, Schönegger A, Eckert C, Cazzaniga G, Stanulla M, Zur Stadt U, Mecklenbräuker A, Schuster M, Kneidinger D, von Stackelberg A, Locatelli F, Schrappe M, Horstmann MA, Attarbaschi A, Bock C, Mann G, Haas OA, Panzer-Grümayer R. KRAS and CREBBP mutations: a relapse-linked malicious liaison in childhood high hyperdiploid acute lymphoblastic leukemia. Leukemia. 2015 Apr 28. doi: 10.1038/leu.2015.107.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25917266

2015

Kulinski TM, Casari MR, Guenzl PM, Wenzel D, Andergassen D, Hladik A, Datlinger P, Farlik M, Theussl HC, Penninger JM, Knapp S, Bock C, Barlow DP, Hudson QJ. Imprinted expression in cystic embryoid bodies shows an embryonic and not an extra-embryonic pattern. Dev Biol. 2015 Jun 15;402(2):291-305. doi: 10.1016/j.ydbio.2015.04.010. Epub 2015 Apr 24.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25912690

2015

Farlik M, Sheffield NC, Nuzzo A, Datlinger P, Schönegger A, Klughammer J, Bock C. Single-cell DNA methylome sequencing and bioinformatic inference of epigenomic cell-state dynamics. Cell Rep. 2015 Mar 3;10(8):1386-97. doi: 10.1016/j.celrep.2015.02.001. Epub 2015 Feb 26.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25732828

2015

Ebert P, Bock C. Improving reference epigenome catalogs by computational prediction. Nat Biotechnol. 2015 Apr;33(4):354-5. doi: 10.1038/nbt.3194.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25850057

2015

Amabile G, Di Ruscio A, Müller F, Welner RS, Yang H, Ebralidze AK, Zhang H, Levantini E, Qi L, Martinelli G, Brummelkamp T, Le Beau MM, Figueroa ME, Bock C, Tenen DG. Dissecting the role of aberrant DNA methylation in human leukaemia. Nat Commun. 2015 May 22;6:7091. doi: 10.1038/ncomms8091.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25997600

2014

Deplus R, Blanchon L, Rajavelu A, Boukaba A, Defrance M, Luciani J, Rothé F, Dedeurwaerder S, Denis H, Brinkman AB, Simmer F, Müller F, Bertin B, Berdasco M, Putmans P, Calonne E, Litchfield DW, de Launoit Y, Jurkowski TP, Stunnenberg HG, Bock C, Sotiriou C, Fraga MF, Esteller M, Jeltsch A, Fuks F. Regulation of DNA methylation patterns by CK2-mediated phosphorylation of Dnmt3a. Cell Rep. 2014 Aug 7;8(3):743-53. doi: 10.1016/j.celrep.2014.06.048. Epub 2014 Jul 24.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25066127

2014

Bock C. Synergy and competition between cancer genome sequencing and epigenome mapping projects. Genome Med. 2014 May 30;6(5):41. doi: 10.1186/gm557. eCollection 2014.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/25031623

2014

Becker D, Lutsik P, Ebert P, Bock C, Lengauer T, Walter J. BiQ Analyzer HiMod: an interactive software tool for high-throughput locus-specific analysis of 5-methylcytosine and its oxidized derivatives. Nucleic Acids Res. 2014 Jul;42(Web Server issue):W501-7. doi: 10.1093/nar/gku457. Epub 2014 May 29.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/24875479

2014

Almouzni G, Altucci L, Amati B, Ashley N, Baulcombe D, Beaujean N, Bock C, Bongcam-Rudloff E, Bousquet J, Braun S, Bressac-de Paillerets B, Bussemakers M, Clarke L, Conesa A, Estivill X, Fazeli A, Grgurević N, Gut I, Heijmans BT, Hermouet S, Houwing-Duistermaat J, Iacobucci I, Ilaš J, Kandimalla R, Krauss-Etschmann S, Lasko P, Lehmann S, Lindroth A, Majdič G, Marcotte E, Martinelli G, Martinet N, Meyer E, Miceli C, Mills K, Moreno-Villanueva M, Morvan G, Nickel D, Niesler B, Nowacki M, Nowak J, Ossowski S, Pelizzola M, Pochet R, Potočnik U, Radwanska M, Raes J, Rattray M, Robinson MD, Roelen B, Sauer S, Schinzer D, Slagboom E, Spector T, Stunnenberg HG, Tiligada E, Torres-Padilla ME, Tsonaka R, Van Soom A, Vidaković M, Widschwendter M. Relationship between genome and epigenome--challenges and requirements for future research. BMC Genomics. 2014 Jun 18;15:487. doi: 10.1186/1471-2164-15-487.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/24942464

2014

Sanchez-Mut JV, Aso E, Heyn H, Matsuda T, Bock C, Ferrer I, Esteller M. Promoter hypermethylation of the phosphatase DUSP22 mediates PKA-dependent TAU phosphorylation and CREB activation in Alzheimer's disease. Hippocampus. 2014 Apr;24(4):363-8. doi: 10.1002/hipo.22245. Epub 2014 Jan 28.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/24436131

2013

Bürckstümmer T, Banning C, Hainzl P, Schobesberger R, Kerzendorfer C, Pauler FM, Chen D, Them N, Schischlik F, Rebsamen M, Smida M, Fece de la Cruz F, Lapao A, Liszt M, Eizinger B, Guenzl PM, Blomen VA, Konopka T, Gapp B, Parapatics K, Maier B, Stöckl J, Fischl W, Salic S, Taba Casari MR, Knapp S, Bennett KL, Bock C, Colinge J, Kralovics R, Ammerer G, Casari G, Brummelkamp TR, Superti-Furga G, Nijman SM. A reversible gene trap collection empowers haploid genetics in human cells. Nat Methods. 2013 Oct;10(10):965-71.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/24161985

2013

Michels KB, Binder AM, Dedeurwaerder S, Epstein CB, Greally JM, Gut I, Houseman EA, Izzi B, Kelsey KT, Meissner A, Milosavljevic A, Siegmund KD, Bock C, Irizarry RA. Recommendations for the design and analysis of epigenome-wide association studies. Nat Methods. 2013 Oct;10(10):949-55. doi: 10.1038/nmeth.2632.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/24076989

2013

Vizcaíno JA, Côté RG, Csordas A, Dianes JA, Fabregat A, Foster JM, Griss J, Alpi E, Birim M, Contell J, O’Kelly J, Schoenegger A, Ovelleiro D, Pérez-Riverol Y, Reisinger F, Ríos D, Wang R, Hermjakob H. The Proteomics Identifications (PRIDE) database and associated tools: status in 2013. Nucleic Acids Res. 2013 January; 41(D1): D1063–D1069.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/23203882

2013

Kollmann K, Heller G, Schneckenleithner C, Warsch W, Scheicher R, Ott RG, Schäfer M, Fajmann S, Schlederer M, Schiefer A-I, Reichart U, Mayerhofer M, Hoeller C, Zöchbauer-Müller C, Kerjaschki D, Bock C, Kenner L, Hoefler G, Freissmuth M, Green AR, Moriggl R, Busslinger M, Malumbres M, Sexl V. A Kinase-Independent Function of CDK6 Links the Cell Cycle to Tumor Angiogenesis. Cancer Cell. 2013 August 12; 24(2): 167–181.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/23948297

2013

Cao K, Lailler N, Zhang Y, Kumar Y, Uppal K, Liu Z, Lee EK, Wu H, Medrzycki M, Pan C, Ho P-Y, Cooper GP Jr, Dong X, Bock C, Bouhassira EE, Fan Y. High-Resolution Mapping of H1 Linker Histone Variants in Embryonic Stem Cells. PLoS Genet. 2013 April; 9(4): e1003417.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/23633960

2012

Simmer F, Brinkman AB, Assenov Y, Matarese F, Kaan A, Sabatino L, Villanueva A, Huertas D, Esteller M, Lengauer T, Bock C, Colantuoni V, Altucci L, Stunnenberg HG. Comparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues. Epigenetics. 2012 Dec 1;7(12):1355-67.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/23079744

2012

Mikeska T, Bock C, Do H, Dobrovic A. DNA methylation biomarkers in cancer: progress towards clinical implementation. Expert Review of Molecular Diagnostics. Expert Rev Mol Diagn. 2012 Jun;12(5):473-87.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22702364

2012

Mekhoubad S, Bock C, Egli D, De Boer S, Kiskinis E, Meissner A, Eggan K. Erosion of Dosage Compensation Impacts Human iPSC Disease Modeling. Cell Stem Cell 2012 May 4;10(5):595-609.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22560080

2012

Halachev K, Bast H, Albrecht F, Lengauer T, Bock C. EpiExplorer: live exploration and global analysis of large epigenomic datasets. Genome Biol. 2012 Oct 3;13(10):R96.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/23034089

2012

Bock C. Analysing and interpreting DNA methylation data. Nat Rev Genet. 2012 Oct;13(10):705-19.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22986265

2012

Bock C, Lengauer T. Managing drug resistance in cancer: lessons from HIV therapy. Nat Rev Cancer. 2012 Jun 7;12(7):494-501.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22673150

2012

Bock C, Beerman I, Lien WH, Smith ZD, Gu H, Boyle P, Gnirke A, Fuchs E, Rossi DJ, Meissner A. Genome-scale dynamics of DNA methylation during blood and skin stem cell differentiation. Mol Cell 2012 Aug 24;47(4):633-47.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22841485

2012

Adams D, Altucci L, Antonarakis SE, Ballesteros J, Beck S, Bird A, Bock C, Boehm B, Campo E, Caricasole A, Dahl F, Dermitzakis ET, Enver T, Esteller M, Estivill X, Ferguson-Smith A, Fitzgibbon J, Flicek P, Giehl C, Graf T, Grosveld F, Guigo R, Gut I, Helin K, Jarvius J, Kuppers R, Lehrach H, Lengauer T, Lernmark A, Leslie D, Loeffler M, Macintyre E, Mai A, Martens JH, Minucci S, Ouwehand WH, Pelicci PG, Pendeville H, Porse B, Rakyan V, Reik W, Schrappe M, Schubeler D, Seifert M, Siebert R, Simmons D, Soranzo N, Spicuglia S, Stratton M, Stunnenberg HG, Tanay A, Torrents D, Valencia A, Vellenga E, Vingron M, Walter J, Willcocks S. BLUEPRINT to decode the epigenetic signature written in blood. Nat Biotechnol 30, 224-226.
Abstract: http://www.ncbi.nlm.nih.gov/pubmed/22398613