Author

Guillaume Kugener

Broad InstituteORCID 0000-0002-4697-2847Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Genomics· 3 Cancer Biology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 4 Organism:human· 4 Research Focus:gene regulatory network inference· 3 Approach:statistical model· 3 Research Focus:differential expression· 2 Approach:experimental assay· 2 Research Focus:cancer & tumor microenvironment· 1 Research Focus:drug response / drug discovery· 1

Frequent Co-Authors

Joshua M. DempsteriD· 3 shared Kimberly StegmaieriD· 3 shared Neekesh V. DhariaiD· 3 shared Charles Y. LiniD· 2 shared Francisca VázqueziD· 2 shared Jazmin EwersiD· 2 shared Jérémie KalfoniD· 2 shared Jesse S. BoehmiD· 2 shared

Activity by Year

2018-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 35 mutual co-author links

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3 shared papersGenomics

Joshua M. DempsterORCID

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Author profile →

4 papers

Recent·Most cited

Synergistic targeting of EP300/CBP and EYA co-activators collapses the rhabdomyosarcoma core regulatory circuit

Annika L. Gustafson, Stephanie Nance, Berkley E. Gryder, Noha A.M. Shendy, Lars Wick, Grace B. McKay-Corkum, K. Elaine Ritter, Stephen Connor Purdy, Arthur R. Wolin, Sheera R. Rosenbaum, Sabateeshan Mathavarajah, Nickerson A. Demelfi, Yueyang Wang, Yang Zhang, Mark W. Zimmerman, , Adam David Durbin

The paper identifies a core regulatory circuit in rhabdomyosarcoma and shows that targeting two co-activators synergistically inhibits tumor growth.

bioRxiv · Sep 3, 2026 · PreprintCancer Biology

Transcriptional plasticity drives leukemia immune escape

Kenneth Eagle, Taku Harada, Jérémie Kalfon, Monika W. Perez, Yaser Heshmati, Jazmin Ewers, Jošt Vrabič Koren, Joshua M. Dempster, Guillaume Kugener, Vikram R. Paralkar, Charles Y. Lin, Neekesh V. Dharia, Kimberly Stegmaier, Stuart H. Orkin, Maxim Pimkin

The paper identifies transcription factors regulating MHC-II expression in AML and shows their role in immune evasion and relapse.

Blood Cancer Discovery · Jun 15, 2022Peer-reviewedGenomics

A distinct core regulatory module enforces oncogene expression in KMT2A-rearranged leukemia

Taku Harada, Yaser Heshmati, Jérémie Kalfon, Monika W. Perez, Juliana M. Xavier-Ferrucio, Jazmin Ewers, Benjamin Hubbell-Engler, Andrew V. Kossenkov, Jana M. Ellegast, Joanna S. Yi, Allyson Bowker, Qian Zhu, Kenneth Eagle, Tianxin Liu, Kai Yan, , Maxim Pimkin

The paper identifies a modular core regulatory circuitry in AML that enforces oncogene expression in KMT2A-rearranged leukemias.

Genes & Development · Mar 1, 2022Peer-reviewedGenomics

Improved estimation of cancer dependencies from large-scale RNAi screens using model-based normalization and data integration

James M. McFarland, Zandra V. Ho, Guillaume Kugener, Joshua M. Dempster, Philip G. Montgomery, Jordan Bryan, John Michael Krill-Burger, Thomas M. Green, Francisca Vázquez, Jesse S. Boehm, Todd R. Golub, William C. Hahn, David E. Root, Aviad Tsherniak

The paper improves gene dependency estimation from RNAi screens by using model-based normalization and data integration, enhancing accuracy and enabling cross-dataset analysis.

Nature Communications · Oct 29, 2018Peer-reviewedGenomics