Roose lab publications are listed in chronological order.
We thank all our collaborators for the exciting team-based research.
2026
Under Review
RasGRP1 is a critical epithelial gatekeeper of the intestinal tuft cell program
Lauren A. Shechtman, Philippe Depeille, Eric Smith, Hong-Erh Liang, Tammie S. Y. Tam, Annabelle Duflock, Victor S. Cortez, Claire E. O’Leary, Alan Shen, Gabi Fradiadakis, Alexis Combes, Hugo Gonzalez, Richard M. Locksley, and Jeroen P. Roose
Under Review
nSMase2-mediated exosome secretion shapes the tumor microenvironment to immunologically support pancreatic cancer
Audrey M. Hendley, Sudipta Ashe, Atsushi Urano, Martin Ng, Tuan Anh Phu, Xianlu L. Peng, Changfei Luan, Anna-Marie Finger, Gun Ho Jang, Natanya R. Kerper, David I. Berrios, David Jin, Jonghyun Lee, Irene R. Riahi, Oghenekevwe M. Gbenedio, Christina Chung, Jeroen P. Roose, Jen Jen Yeh, Steven Gallinger, Andrew V. Biankin, Grainne M. O’Kane, Vasilis Ntranos, David K. Chang, David W. Dawson, Grace E. Kim, Valerie M. Weaver, Robert L. Raffai, and Matthias Hebrok
Under Review
Kdm6 demethylases regulate pancreatic cancer plasticity and subtype specification.
Laura Leonhardt, Sudipta Ashe, Audrey Hendley, David Berrios, Lucia Li, Oghenekevwe Gbenedio, Jeroen Roose, Grace Kim, and Matthias Hebrok.
2025
Dec 2025
SPECTRAL FLOW FOR ORGANOIDS.
Jeroen Roose, Samantha Little, Morgan Prinz, Lisiena Hysenaj, Anna Finger, Maggie Sweeney, Hugo Gonzalez, Lomax Pas, Khang Nguyen, Michelle Gbenedio, Eunice Bonfil Tapia, Esther Sim, Rachel Waldemer-Streyer, Lauren Shechtman.
Blood Advances
Oct 2025
Single cell proteomics characterization of bone marrow hematopoiesis with distinct Ras pathway lesions.
Karra L, Finger AM, Shechtman L, Krush M, Huang RM, Prinz M, Tennvooren I, Bahl K, Hysienaj L, Gonzalez PG, Combes AJ, Gonzalez H, Argüello RJ, Spitzer MH, Roose JP.
Nature Cell Biology
Jun 2025
Autophagic turnover of NBR1-p62/SQSTM1 condensates suppresses breast cancer metastasis.
Gourish Mondal, Hugo V Gonzalez, Timothy Marsh, Andrew Leidel, Ariadne Vlahakis, Pravin Phadatare, Sofı́a Bustamante Eguiguren, Michael Bruck, Akul Naik, Arun Wiitta, Jeroen Roose, Jennifer Rosenbluth, Jayanta Debnath.
2024
Science Advances
Aug 2024
Immediate myeloid depot for SARS-CoV-2 in the human lung.
Mélia Magnen, Ran You, Arjun A. Rao, Ryan T. Davis, Lauren Rodriguez, Camille R. Simoneau, Lisiena Hysenaj, Kenneth H. Hu, The UCSF COMET Consortium, Christina Love, Prescott G. Woodruff, David J. Erle, Carolyn M. Hendrickson, Carolyn S. Calfee, Michael A. Matthay, Jeroen P. Roose, Anita Sil, Melanie Ott, Charles R. Langelier, Matthew F. Krummel, Mark R. Looney.
Scientific Reports
Jul 2024
NF-κB inhibitor alpha has a cross-variant role during SARS-CoV-2 infection in ACE2-overexpressing human airway organoids.
Simoneau CR, Chen PY, Xing GK, Khalid MM, Meyers NL, Hayashi JM, Taha TY, Leon KE, Ashuach T, Fontaine KA, Rodriguez L, Joehnk B, Walcott K, Vasudevan S, Fang X, Maishan M, Schultz S, Roose J, Matthay MA, Sil A, Arjomandi M, Yosef N, Ott M.
Nature Communications
May 2024
Focal adhesion kinase signaling mediates YAP activity in drug tolerant persister cells in lung cancer.
Franziska Haderk, Celia Fernández-Méndez, Lauren Čech, Johnny Yu, Ismail M. Meraz, Victor Olivas, Dora Barbosa Rabago, Carlos Gomez, D. Lucas Kerr, David V. Allegakoen, Juan Guan, Khyati N. Shah, Kari A. Herrington, Oghenekevwe M. Gbenedio, Mourad Majidi, Whitney Tamaki, Julia K. Rotow, Caroline E. McCoach, Jonathan W. Riess, J. Silvio Gutkind, Tracy T. Tang, Leonard Post, Bo Huang, Pilar Santisteban, Hani Goodarzi, Sourav Bandyopadhyay, Calvin J. Kuo, Jeroen P. Roose, Wei Wu, Collin M. Blakely, Jack A. Roth, Trever G. Bivona.
2023
Stem Cell Reports
Mar 2023
SARS-CoV-2 infection of Airway Organoids Reveals Conserved Use of Tetraspanin-8 by Ancestral-, Delta-, and Omicron- Variants.
Lisiena Hysenaj, Samantha Little, Kayla Kulhanek, Oghenekevwe M. Gbenedio, Lauren Rodriguez, Alan Shen, Jean-Christophe Lone, Leonard C. Lupin-Jimenez, Luke R. Bonser , Nina K. Serwas, Kriti Bahl, Eran Mick, Jack Z. Li, Vivianne W. Ding, Shotaro Matsumoto, Mazharul Maishan, Camille Simoneau, Gabriela Fragiadakis, David M. Jablons, Charles R. Langelier, Michael Matthay, Melanie Ott, Matthew Krummel, Alexis J. Combes, Anita Sil, David J. Erle, Johannes R. Kratz, and Jeroen P. Roose.
Cancer Cell
May 2023
Transcriptional-translational conflict is a barrier to cellular transformation and cancer progression.
Sujata Jana, Sandipan Braham, Sonali Arora, Cynthia L. Wladyka, Patrick Hoang, Rowan Hough, Jessie L. Horn, Yuzhen Liu, Li-Jie Wang, Philippe Depeille, Eric Smith. Robert B. Montgomery, John K. Lee, Michael C. Haffner, Funda Vakar-Lopez, Petros Grivas, Jonathan L. Wright, Hung-Ming Lam, Peter C. Black, Jeroen P. Roose, Alexey G. Ryazanov, Stephen Henikoff, Andrew C. Hsieh.
Journal of Immunology
Sep 2023
Cutting Edge: Induced Loss of Rasgrp1 in Peripheral CD4+ T Cells of Conditional Rasgrp1-Deficient Mice Reveals an Essential Role for Rasgrp1 in TCR/CD28-Induced Ras-MAPK Signaling.
Yating Chang, Praveen Manivannan, Abbas Doosti, Philip E. Lapinski, Di Chen, Jeroen P. Roose, and Philip D. King.
2022
Leukemia
Apr 2022
Tcof1 haploinsufficiency promotes early T cell precursor-like leukemia in NrasQ61R/+ mice.
Zhi Wen, Remington Finn, Xin Gao, Lin Li, Alexander Hebert, Erik Ranheim, Yun Zhou, Grant Yun, Jeroen Roose, Joshua J. Coon, Rita Shiang, Renren Wen, Menggang Yu, Demin Wang, and Jing Zhang.
Cell
Feb 2022
Cellular Architecture of Human Brain Metastases
Hugo Gonzalez*, Wenbin Mei, Isabella Robles, Catharina Hagerling, Breanna M. Allen, Trine Line Hauge Okholm, Ankitha Nanjaraj, Tamara Verbeek, Sandhya Kalavacherla, Merel van Gogh, Stephen Georgiou, Mariza Daras, Joanna J. Phillips, Matthew H. Spitzer, Jeroen P. Roose*, and Zena Werb.
2021
Current Opinion in Immunology
Dec 2021
Editorial overview: Communities in immune cell signaling.
Jeroen Roose & Gregory Barton.
Springer Nature Link
Methods in Molecular Biology
May 2021
Regulation of the small GTPase Ras and its relevance to human disease.
Kayla R. Kulhanek, Jeroen P. Roose, and Ignacio Rubio.
Biochemical Journal
Mar 2021
A Dedicated Effector Kinase Pathways for Every Trait?
Kriti Bahl & Jeroen Roose.
Cancers
Feb 2021
Bioinformatic Approaches to Validation and Functional Analysis of 3D Lung Cancer Models.
Jonathan Li, Jeroen Roose, David Jablons, and Johannes Kratz.
Small GTPases
Feb 2021
Investigating increased hematopoietic stem cell fitness in a novel mouse model.
Laila Karra & Jeroen Roose.
Blood
Jan 2021
NrasQ61R/+ and Kras-/- cooperate to downregulate Rasgrp1 and promote lympho-myeloid leukemia in early thymic T cell progenitors.
Zhi Wen, Grant Yun, Alexander Hebert, Guangyao Kong, Erik A. Ranheim, Remington Finn, Adhithi Rajagoplan, Shuyi Li, Yun Zhou, Alisa Damnernsawad, Jeroen P. Roose, Joshua J. Coon, Renren Wen, Demin Wang, Jing Zhang.
2020
Oncogene
Oct 2020
Increased baseline RASGRP1 signals Enhance Stem Cell Fitness during Native Hematopoiesis.
Laila Karra, Damia Romero-Moya, Olga Ksionda, Milana Krush, Zhaohui Gu, Marsilius Mues, Philippe Depeille, Charles Mullighan, and Jeroen Roose.
European Journal of Immunology
Oct 2020
Dysregulated RasGRP1 expression promotes autoimmunity.
Matthijs Baars, Thera Douma, Dimitre R. Simeonov, Darienne R. Myers, Saikat Banerjee, Kayla Kulhanek, Susan Zwakenberg, Marijke P. Baltissen, Sytze de Roock, Femke van Wijk, Michiel Vermeulen, Alexander Marson, Jeroen Roose, and Yvonne Vercoulen.
Cell Stem Cell
Aug 2020
Next generation surrogate Wnts support organoid growth and deconvolute Frizzled pleiotropy in vivo.
Yi Miao; Andrew Ha; Wim de Lau; Kanako Yuki; António J. M. Santos; Changjiang You; Maarten Geurts; Jens Puschhof; Cayetano Pleguezuelos-Manzano; Weng Chuan Peng; Ramazan Senlice; Carol Piani; Jan W. Buikema; Oghenekevwe M. Gbenedio; Mario Vallon; Jenny Yuan; Sanne de Haan; Wieger Hemrika; Kathrin Rösch; Luke T. Dang; David Baker; Melanie Ott; Philippe Depeille; Sean M. Wu; Jarno Drost; Roeland Nusse; Jeroen P. Roose; Jacob Piehler; Sylvia F. Boj; Claudia Y. Janda; Hans Clevers; Calvin J. Kuo; K. Christopher Garcia.
STAR Protocols
July 2020
Protocol for barcoding T cells combined with timed stimulations.
Kayla R. Kulhanek, Darienne R. Myers, Olga Ksionda, Yvonne Vercoulen, Damia Romero-Moya, and Jeroen P Roose.
STAR Protocols
Jun 2020
Protocol for comprehensive synthetic lethality screens.
Damia Romero-Moya & Jeroen P Roose
2019
Science
October
Cryo-EM structure of a dimeric B-Raf:14-3-3 complex reveals asymmetry in the active sites of B-Raf kinases.
Kondo Y, Ognjenović J, Banerjee S, Karandur D, Merk A, Kulhanek K, Wong K, Roose JP, Subramaniam S, Kuriyan J.
Cancers
September
Unraveling Heterogeneity in Epithelial Cell Fates of the Mammary Gland and Breast Cancer.
Samocha A, Doh H, Kessenbrock K, Roose JP.
Immunological Reviews
September
mTOR and other effector kinase signals that impact T cell function and activity
Darienne R. Myers, Ben Wheeler, Jeroen P. Roose
JCI Insight
August
RasGRP1 is a potential biomarker to stratify anti-EGFR therapy response in colorectal cancer
Oghenekevwe M. Gbenedio, Caroline Bonnans, Delphine Grun, Chih-Yang Wang, Ace J. Hatch, Michelle R. Mahoney, David Barras, Mary Matli, Yi Miao, K Christopher Garcia, Sabine Tejpar, Mauro Delorenzi, Alan P. Venook, Andrew B. Nixon, Robert S. Warren, Jeroen P. Roose and Philippe Depeille
Science Signaling
July
Alternative ZAP70-p38 signals prime a classical p38 pathway through LAT and SOS to support regulatory T cell differentiation
Jesse E. Jun*, Kayla R. Kulhanek*, Hang Chen, Arup Chakraborty, Jeroen P Roose
Cell Reports
May
Active Tonic mTORC1 Signals Shape Baseline Translation in Naïve T cells
Darienne R. Myers, Emilia Norlin, Yvonne Vercoulen and Jeroen P. Roose
Cell Reports
April
High-Complexity shRNA Libraries Predict Synthetic Lethality in the Context of PI3Kinase Inhibition with High Fidelity
Marsilius Mues, Laila Karra, Damia Romero Moya, Anica Wandler, Olga Ksionda, Yvonne Thus, Marthe Lindenbergh, Kevin Shannon, Michael McManus and Jeroen P. Roose
2018
PLoS ONE
May
Comprehensive analysis of T cell leukemia signals reveals heterogeneity in the PI3 kinase-Akt pathway and limitations of PI3 kinase inhibitors as monotherapy
Ksionda O, Mues M, Wandler AM, Donker L, Tenhagen M, Jun J, Ducker GS, Matlawska-Wasowska K, Shannon K, Shokat KM, Roose JP.
2017
eLIFE
September
A Histidine pH Sensor Regulates Activation of the Ras-specific Guanine Nucleotide Exchange Factor RasGRP1
Yvonne Vercoulen*, Yasushi Kondo*, Jeffrey S. Iwig*, Axel B. Janssen, Katharine A. White, Mojtaba Amini, Diane L. Barber, John Kuriyan, and Jeroen P. Roose
Trends in Immunology
August
Tonic Signals: Why Do Lymphocytes Bother?
Darienne R. Myers, Julie Zikherman, and Jeroen P. Roose
Cell Reports
May
Tonic LAT-HDAC7 signals sustain Nur77 and Irf4 expression to tune naïve CD4 T cells
Darienne R. Myers*, Tannia Lau*, Evan Markegard, Hyung W. Lim, Herbert Kasler, Minghua Zhu, Andrea Barczak, John P. Huizar, Julie Zikherman, David J. Erle, Weiguo Zhang, Eric Verdin, and Jeroen P. Roose
Cancer Cell
May
RasGRP3 mediates MAPK pathway activation in GNAQ mutant uveal melanoma
Xu Chen, Qiuxia Wu, Philippe Depeille, Peirong Chen, Sophie Thornton, Helen Kalirai, Sarah E. Coupland, Jeroen P Roose, Boris C Bastian
2016
Nature Structural and Molecular Biology
August
One-way membrane trafficking of SOS in receptor-triggered Ras activation
Sune M. Christensen*, Hsiung-Lin Tu*, Jesse Jun*, Steven Alvarez, Meredith Triplet, Jeffrey S. Iwig, Kamlesh Yadav, Dafna Bar-Sagi, Jeroen P. Roose#, Jay T. Groves#
PMID: 27501536
Encyclopedia of Immunobiology. 11006.
May
Kinase and Phosphatase Effector Pathways in T cells
Darienne R. Myers and Jeroen P. Roose
Small GTPases
May
Distinct oncogenic Ras signals characterized by profound differences in flux through the RasGDP/RasGTP cycle
Marsilius Mues and Jeroen P. Roose
Journal of Neuroscience
January
Human iPS cell-derived neurons uncover the impact of increased Ras Signaling in Costello Syndrome
Gemma Rooney, Alice Goodwin, Philippe Depeille, Amnon Sharir, Claude Schofield, Erika Yeh, Jeroen Roose, Ophir Klein, Katherine Rauen, Lauren Weiss, and Erik Ullian
2015
Oncogene
November
RasGRP1 overexpression in T-ALL increases basal nucleotide exchange on Ras rendering the Ras/PI3K/Akt pathway responsive to pro-tumorigenic cytokines
Olga Ksionda, Alexis A. Melton, Juliane Bache, Milou Tenhagen, Jeroen Bakker, Richard Harvey, Stuart S. Winter, Ignacio Rubio and Jeroen P. Roose
Oncotarget
Unexpected insights for anti-EGFR cancer therapy
Philippe Depeille, Robert S. Warren, and Jeroen P. Roose
Cell Cycle
August
Flavors of EGFR-Ras signals impacting intestinal homeostasis
Philippe Depeille and Jeroen P. Roose
Nature Cell Biology
May
RasGRP1 Opposes Proliferative EGFR-SOS1 Ras Signals and Restricts Intestinal Epithelial Cell Growth
Philippe Depeille, Linda M. Henricks, Robert A. H. van de Ven, Ed Lemmens, Chih-Yang Wang, Mary Matli, Zena Werb, Kevin M. Haigis, David Donner, Robert Warren, and Jeroen Roose
Journal of Immunology
May
Beth A. Lubeck, Philip E. Lapinski, Jennifer A. Oliver, Olga Ksionda, Luis F. Parada, Yuan Zhu, Ivan Maillard, Mark Chiang, Jeroen Roose, and Philip D. King
Current Opinion in Immunology
April
Editorial overview: Lymphocyte development and activation: Lymphocytes, integrators of information
Jeroen Roose and Sidonia Fagarasan
2014
Mol. Cell. Biology
April
Andre Limnander, Julie Zikherman, Tannia Lau, Michael Leitges, Arthur Weiss and Jeroen P. Roose
2013
eLIFE
December
Stephen R. Daley*, Kristen M. Coakley*, Daniel Hu*, Katrina L. Randall*, Craig N. Jenne*, Andre Limnander*, Darienne R. Myers, Noelle K. Polakos, Anselm Enders, Carla Roots, Bhavani Balakishnan, Lisa A. Miosge, Geoff Sjollema, Edward M Bertram, Matthew A Field, Yunli Shao, T. Daniel Andrews, Belinda Whittle, S. Whitney Barnes, John R. Walker, Jason G. Cyster, Christopher C. Goodnow #, and Jeroen P. Roose #
Science Signaling
December
Ernesto Diaz-Flores, Hana Goldschmidt, Philippe Depeille, Victor Ng, Kimberly Krisman, Michael Crone, Olusegun Williams, Benjamin Houseman, Kevan Shokat, Deepak Sampath, Gideon Bollag, Jeroen P. Roose, Benjamin S. Braun, and Kevin Shannon
eLIFE
July
The Structural Basis for Autoinhibition of the Ras-specific exchange factor RasGRP1
Jeffrey S. Iwig, Yvonne Vercoulen, Rahul Das, Tiago Barros, Andre Limnander, Yan Che, Jeffrey G. Pelton, David E. Wemmer, Jeroen P. Roose# and John Kuriyan#
Frontiers in Biology
October
RasGRP Ras Guanine Nucleotide Exchange Factors in Cancer
Olga Kisionda, Andre Limnander, and Jeroen P. Roose
Frontiers in Immunology
September
Jesse Jun, Ignacio Rubio, and Jeroen P. Roose
Cell Cycle
May
Biochemical heterogeneity and developmental varieties in T-cell leukemia
Arup K. Chakraborty and Jeroen P. Roose
Mol. Cell. Biology
April
Jesse Jun, Ming Yang, Hang Chen, Arup Chakraborty, and Jeroen Roose
Science Signaling
March
Dysregulated RasGRP1 Responds to Cytokine Receptor-input in T cell leukemogenesis
Catherine Hartzell*, Olga Ksionda*, Ed Lemmens*, Kristen Coakley, Ming Yang, Richard Harvey, Chris Govern, Jeroen Bakker, Tineke Lenstra, Monique Dail, Kristin Ammon, Anne Boeter, Mignon Loh, Stuart Winter, Arup Chakraborty, Kevin Shannon, Matthias Wabl, and Jeroen Roose
2012
Journal of Immunology
December
Robert L. Kortum, Alexander Rouquette-Jazdanian, Michihiko Miyaji, Robert K. Merrill, Evan Markegard, John M. Pinski, Amelia Wesselink, Nandan N. Nath, Clayton P. Alexander, Wenmei Li, Noemi Kedei, Jeroen P. Roose, Peter M. Blumberg, Lawrence E. Samelson, and Connie L. Sommers
J Phys Chem B
March
The Membrane Environment Can Promote or Suppress Bistability in Cell Signaling Networks
Abel SM, Roose JP, Groves JT, Weiss A, Chakraborty AK
2011
Nature Immunology
May
Andre Limnander, Philippe Depeille, Jen Liou, Michael Leitges, Tomohiro Kurosaki, Jeroen P. Roose and Arthur Weiss
Nature Immunology
May
Andre Limnander, Philippe Depeille, Jen Liou, Michael Leitges, Tomohiro Kurosaki, Jeroen P. Roose and Arthur Weiss
2009
Nature
September
Response and resistance to MEK inhibition in leukaemias initiated by hyperactive Ras
Jennifer O. Lauchle, Doris Ki, Doan T. Le, Keiko Akagi, Michael Crone, Kimberly Krisman, Kegan Warner, Jeannette M. Bonifas, Qing Li, Kristin M. Coakley, Ernesto Diaz-Flores, Matthew Gorman, Sally Przybranowski, Mary Tran, Scott C. Kogan, Jeroen P. Roose, Neal Copeland, Nancy Jenkins, Luis Parada, Linda Wolff, Judith Sebolt-Leopold, and Kevin Shannon
Science Signaling
April
Chakraborty AK, Das J, Zikherman J, Yang M, Govern CC, Ho M, Weiss A, and Roose J.
Cell
January
Digital signaling and hysteresis characterize Ras activation in lymphoid cells
Jayajit Das, Mary Ho, Julie Zikherman, Christopher Gover, Ming Yang, Arthur Weiss, Arup K. Chakraborty, and Jeroen P. Roose
PNAS
January
Origin of the sharp boundary that discriminates positive and negative selection of thymocytes
Ashok Prasad, Julie Zikherman, Jayajit Das, Jeroen Roose, Arthur Weiss, Arup K. Chakraborty