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Year
Paper
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 6:S1074-7613(23)00024-9. doi: 10.1016/j.immuni.2023.01.014. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36750099/
2023

Macrophage and monocyte subsets as new therapeutic targets in cancer immunotherapy

B Fendl, A S Berghoff, M Preusser, B Maier.
ESMO Open. 2023 Jan 31;8(1):100776. doi: 10.1016/j.esmoop.2022.100776. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36731326/
2023

A genome-wide CRISPR functional survey of the human phagocytosis molecular machinery

Patrick Essletzbichler, Vitaly Sedlyarov, Fabian Frommelt, Didier Soulat, Leonhard X Heinz, Adrijana Stefanovic, Benedikt Neumayer, Giulio Superti-Furga.
Life Sci Alliance. 2023 Feb 1;6(4):e202201715. doi: 10.26508/lsa.202201715. Print 2023 Apr.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36725334/
2022

In vivo modeling of CLL transformation to Richter's syndrome reveals convergent evolutionary paths and therapeutic vulnerabilities

Elisa Ten Hacken, Tomasz Sewastianik, Shanye Yin, Gabriela Brunsting Hoffmann, Michaela Gruber, Kendell Clement, Livius Penter, Robert A Redd, Neil Ruthen, Sebastien Hergalant, Alanna Sholokhova, Geoffrey Fell, Erin M Parry, Julien Broseus, Romain Guieze, Fabienne Lucas, Maria Hernandez-Sanchez, Kaitlyn Baranowski, Jackson Southard, Heather Joyal, Leah Billington, Fara Faye D Regis, Elizabeth Witten, Mohamed Uduman, Binyamin A Knisbacher, Shuqiang Li, Haoxiang Lyu, Tiziana Vaisitti, Silvia Deaglio, Giorgio Inghirami, Pierre Feugier, Stephan Stilgenbauer, Eugen Tausch, Matthew S Davids, Gad Getz, Kenneth J Livak, Ivana Bozic, Donna S Neuberg, Ruben D Carrasco, Catherine J Wu.
Blood Cancer Discov. 2022 Dec 5:BCD-22-0082. doi: 10.1158/2643-3230.BCD-22-0082. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36468984/
2023

Advancing Targeted Protein Degradation via Multiomics Profiling and Artificial Intelligence

Miquel Duran-Frigola, Marko Cigler, Georg E Winter.
J Am Chem Soc. 2023 Feb 8;145(5):2711-2732. doi: 10.1021/jacs.2c11098. Epub 2023 Jan 27.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36706315/
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 Jan 23:109245. doi: 10.1016/j.clim.2023.109245. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36702179/
2022

Functional E3 ligase hotspots and resistance mechanisms to small-molecule degraders

Alexander Hanzl, Ryan Casement, Hana Imrichova, Scott J Hughes, Eleonora Barone, Andrea Testa, Sophie Bauer, Jane Wright, Matthias Brand, Alessio Ciulli, Georg E Winter.
Nat Chem Biol. 2022 Nov 3. doi: 10.1038/s41589-022-01177-2. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36329119/
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. 2022 Nov 9. doi: 10.1002/jcsm.13109. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36351437/
2022

Secreted Mutant Calreticulins As Rogue Cytokines in Myeloproliferative Neoplasms

Christian Pecquet, Nicolas Papadopoulos, Thomas Balligand, Ilyas Chachoua, Amandine Tisserand, Gaëlle Vertenoeil, Audrey Nédélec, Didier Vertommen, Anita Roy, Caroline Marty, Harini Nivarthi, Jean-Philippe Defour, Mira El-Khoury, Eva Hug, Andrea Majoros, Erica Xu, Oleh Zagrijtschuk, Tudor Emanuel Fertig, Daciana S Marta, Heinz Gisslinger, Bettina Gisslinger, Martin Schalling, Ilaria Carola Casetti, Elisa Rumi, Daniela Pietra, Chiara Cavalloni, Luca Arcaini, Mario Cazzola, Norio Komatsu, Yoshihiko Kihara, Yoshitaka Sunami, Yoko Edahiro, Marito Araki, Roman Lesyk, Veronika Buxhofer-Ausch, Sonja Heibl, Florence Pasquier, Isabelle Plo, William Vainchenker, Robert Kralovics, Stefan N Constantinescu.
Blood. 2022 Nov 10:blood.2022016846. doi: 10.1182/blood.2022016846. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36356299/
2022

POLθ processes ssDNA gaps and promotes replication fork progression in BRCA1-deficient cells

Anna Schrempf, Sara Bernardo, Emili A Arasa Verge, Miguel A Ramirez Otero, Jordan Wilson, Dominik Kirchhofer, Gerald Timelthaler, Anna M Ambros, Atilla Kaya, Marcus Wieder, Gerhard F Ecker, Georg E Winter, Vincenzo Costanzo, Joanna I Loizou.
Cell Rep. 2022 Nov 29;41(9):111716. doi: 10.1016/j.celrep.2022.111716. Epub 2022 Nov 17.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36400033/
2022

Author Correction: Unsupervised discovery of tissue architecture in multiplexed imaging

Junbum Kim, Samir Rustam, Juan Miguel Mosquera, Scott H Randell, Renat Shaykhiev, André F Rendeiro, Olivier Elemento.
Nat Methods. 2022 Dec;19(12):1662. doi: 10.1038/s41592-022-01717-7.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36414761/
2022

Functional characterization of SLC39 family members ZIP5 and ZIP10 in overexpressing HEK293 cells reveals selective copper transport activity

Marcello Polesel, Alvaro Ingles-Prieto, Eirini Christodoulaki, Evandro Ferrada, Cédric Doucerain, Patrick Altermatt, Michelle Knecht, Michael Kuhn, Anna-Lena Steck, Maria Wilhelm, Vania Manolova.
Biometals. 2022 Dec 1. doi: 10.1007/s10534-022-00474-6. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36454509/
2022

Cell-based therapy in prophylaxis and treatment of chronic graft-versus-host disease

Matteo Doglio, Rachel E Crossland, Ana C Alho, Olaf Penack, Anne M Dickinson, Georg Stary, João F Lacerda, Günther Eissner, Marit Inngjerdingen.
Front Immunol. 2022 Nov 17;13:1045168. doi: 10.3389/fimmu.2022.1045168. eCollection 2022.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36466922/
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

Metabolic modulation of transcription: The role of one-carbon metabolism

Jung-Ming G Lin, Savvas Kourtis, Ritobrata Ghose, Natalia Pardo Lorente, Stefan Kubicek, Sara Sdelci.
Cell Chem Biol. 2022 Dec 1:S2451-9456(22)00415-9. doi: 10.1016/j.chembiol.2022.11.009. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36513079/
2022

Spatial omics technologies at multimodal and single cell/subcellular level

Jiwoon Park, Junbum Kim, Tyler Lewy, Charles M Rice, Olivier Elemento, André F Rendeiro, Christopher E Mason.
Genome Biol. 2022 Dec 13;23(1):256. doi: 10.1186/s13059-022-02824-6.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36514162/
2022

VirPool: model-based estimation of SARS-CoV-2 variant proportions in wastewater samples

Askar Gafurov, Andrej Baláž, Fabian Amman, Kristína Boršová, Viktória Čabanová, Boris Klempa, Andreas Bergthaler, Tomáš Vinař, Broňa Brejová.
BMC Bioinformatics. 2022 Dec 19;23(1):551. doi: 10.1186/s12859-022-05100-3.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36536300/
2022

Novel PGM3 mutation in two siblings with combined immunodeficiency and childhood bullous pemphigoid: a case report and review of the literature

Mazdak Fallahi, Mahnaz Jamee, Javad Enayat, Fahimeh Abdollahimajd, Mehrnaz Mesdaghi, Maliheh Khoddami, Anna Segarra-Roca, Alexandra Frohne, Jasmin Dmytrus, Mohammad Keramatipour, Mahboubeh Mansouri, Golnaz Eslamian, Shahrzad Fallah, Kaan Boztug, Zahra Chavoshzadeh.
Allergy Asthma Clin Immunol. 2022 Dec 24;18(1):111. doi: 10.1186/s13223-022-00749-0.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36566211/
2022

CIDE-stepping E3s

Gary Tin, Georg E Winter.
Nat Chem Biol. 2023 Jan;19(1):3-4. doi: 10.1038/s41589-022-01217-x.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36577874/
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

Dual redox-active porous polyimides as high performance and versatile electrode material for next-generation batteries

Nicolas Goujon, Marianne Lahnsteiner, Daniel A Cerrón-Infantes, Hipassia M Moura, Daniele Mantione, Miriam M Unterlass, David Mecerreyes.
Mater Horiz. 2023 Jan 12. doi: 10.1039/d2mh01335e. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36633135/
2023

Proline and glucose metabolic reprogramming supports vascular endothelial and medial biomass in pulmonary arterial hypertension

Bradley M Wertheim, Rui-Sheng Wang, Christelle Guillermier, Christiane Vr Hütter, William M Oldham, Jörg Menche, Matthew L Steinhauser, Bradley A Maron.
JCI Insight. 2023 Jan 10:e163932. doi: 10.1172/jci.insight.163932. Online ahead of print.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36626231/
2023

Apoptosis as a Barrier against CIN and Aneuploidy

Johannes G Weiss, Filip Gallob, Patricia Rieder, Andreas Villunger.
Cancers (Basel). 2022 Dec 21;15(1):30. doi: 10.3390/cancers15010030.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36612027/
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/
2023

E3-Specific Degrader Discovery by Dynamic Tracing of Substrate Receptor Abundance

Alexander Hanzl, Eleonora Barone, Sophie Bauer, Hong Yue, Radosław P Nowak, Elisa Hahn, Eugenia V Pankevich, Anna Koren, Stefan Kubicek, Eric S Fischer, Georg E Winter.
J Am Chem Soc. 2023 Jan 18;145(2):1176-1184. doi: 10.1021/jacs.2c10784. Epub 2023 Jan 5.
Abstract: https://pubmed.ncbi.nlm.nih.gov/36602777/