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Kerry Goodman, Phinikoula Katsamba, Rotem Rubinstein, Goran Ahlsen, Fabiana Bahna, Seetha Mannepalli, Hanbin Dan, Rosemary Sampogna V, Lawrence Shapiro, Barry Honig .  2022.   How clustered protocadherin binding specificity is tuned for neuronal self-/nonself-recognition.. eLife. 11 ▶ Go to Pubmed
Sho Iketani, Lihong Liu, Yicheng Guo, Liyuan Liu, Jasper Chan, Yiming Huang, Maple Wang, Yang Luo, Jian Yu, Hin Chu, Kenn Chik, Terrence Yuen, Michael Yin, Magdalena Sobieszczyk, Yaoxing Huang, Kwok-Yung Yuen, Harris Wang, Zizhang Sheng, David Ho .  2022.   Antibody evasion properties of SARS-CoV-2 Omicron sublineages.. Nature. 604 (7906) :553-556 ▶ Go to Pubmed
Sho Iketani, Lihong Liu, Yicheng Guo, Liyuan Liu, Jasper Chan, Yiming Huang, Maple Wang, Yang Luo, Jian Yu, Hin Chu, Kenn Chik, Terrence Yuen, Michael Yin, Magdalena Sobieszczyk, Yaoxing Huang, Kwok-Yung Yuen, Harris Wang, Zizhang Sheng, David Ho .  2022.   Antibody evasion properties of SARS-CoV-2 Omicron sublineages.. Nature. 604 (7906) :553-556 ▶ Go to Pubmed
Kazuya Masuda, Adam Kornberg, Jonathan Miller, Sijie Lin, Nathan Suek, Theo Botella, Kerim Secener, Alyssa Bacarella, Liang Cheng, Matthew Ingham, Vilma Rosario, Ahmed Al-Mazrou, Steven Lee-Kong, Ravi Kiran, Marlon Stoeckius, Peter Smibert, Armando Del Portillo, Paul Oberstein, Peter Sims, Kelley Yan, Arnold Han .  2022.   Multiplexed single-cell analysis reveals prognostic and nonprognostic T cell types in human colorectal cancer.. JCI insight. 7 (7) ▶ Go to Pubmed
Gabriele Cerutti, Yicheng Guo, Lihong Liu, Liyuan Liu, Zhening Zhang, Yang Luo, Yiming Huang, Harris Wang, David Ho, Zizhang Sheng, Lawrence Shapiro .  2022.   Cryo-EM structure of the SARS-CoV-2 Omicron spike.. Cell reports. 38 (9) :110428 ▶ Go to Pubmed
Alberto Bartolomé, Nina Suda, Junjie Yu, Changyu Zhu, Jinsook Son, Hongxu Ding, Andrea Califano, Domenico Accili, Utpal Pajvani .  2022.   Notch-mediated Ephrin signaling disrupts islet architecture and β cell function.. JCI insight. 7 (6) ▶ Go to Pubmed
Víctor Arrieta, Andrew Chen, Robert Kane, Seong Kang, Cynthia Kassab, Crismita Dmello, Junfei Zhao, Kirsten Burdett, Pavan Upadhyayula, Catalina Lee-Chang, Joseph Shilati, Dinesh Jaishankar, Li Chen, Andrew Gould, Daniel Zhang, Jinzhou Yuan, Wenting Zhao, Xiaoyang Ling, Jared Burks, Brice Laffleur, Christina Amidei, Jeffrey Bruce, Rimas Lukas V, Jonathan Yamaguchi, David Cieremans, Gerson Rothschild, Uttiya Basu, Matthew McCord, Daniel Brat, Hui Zhang, Lee Cooper, Bin Zhang, Peter Sims, Tim Cloughesy, Robert Prins, Peter Canoll, Roger Stupp, Amy Heimberger, Craig Horbinski, Fabio Iwamoto, Raul Rabadan, Adam Sonabend .  2022.   Publisher Correction: ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma.. Nature cancer. 3 (3) :373 ▶ Go to Pubmed
Víctor Arrieta, Andrew Chen, Robert Kane, Seong Kang, Cynthia Kassab, Crismita Dmello, Junfei Zhao, Kirsten Burdett, Pavan Upadhyayula, Catalina Lee-Chang, Joseph Shilati, Dinesh Jaishankar, Li Chen, Andrew Gould, Daniel Zhang, Jinzhou Yuan, Wenting Zhao, Xiaoyang Ling, Jared Burks, Brice Laffleur, Christina Amidei, Jeffrey Bruce, Rimas Lukas V, Jonathan Yamaguchi, David Cieremans, Gerson Rothschild, Uttiya Basu, Matthew McCord, Daniel Brat, Hui Zhang, Lee Cooper, Bin Zhang, Peter Sims, Tim Cloughesy, Robert Prins, Peter Canoll, Roger Stupp, Amy Heimberger, Craig Horbinski, Fabio Iwamoto, Raul Rabadan, Adam Sonabend .  2022.   Publisher Correction: ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma.. Nature cancer. 3 (3) :373 ▶ Go to Pubmed
Pasquale Laise, Megan Stanifer, Gideon Bosker, Xiaoyun Sun, Sergio Triana, Patricio Doldan, Federico La Manna, Marta De Menna, Ronald Realubit, Sergey Pampou, Charles Karan, Theodore Alexandrov, Marianna de Julio, Andrea Califano, Steeve Boulant, Mariano Alvarez .  2022.   A Model for Network-Based Identification and Pharmacological Targeting of Aberrant, Replication-Permissive Transcriptional Programs Induced by Viral Infection.. Research square. ▶ Go to Pubmed
Na Zhu, Michael Pauciulo, Carrie Welch, Katie Lutz, Anna Coleman, Claudia Gonzaga-Jauregui, Jiayao Wang, Joseph Grimes, Lisa Martin, Hua He, PAH Investigators, Yufeng Shen, Wendy Chung, William Nichols .  2022.   Correction to: Novel risk genes and mechanisms implicated by exome sequencing of 2572 individuals with pulmonary arterial hypertension.. Genome medicine. 14 (1) :12 ▶ Go to Pubmed
Zoila Lopez-Bujanda, Michael Haffner, Matthew Chaimowitz, Nivedita Chowdhury, Nicholas Venturini, Radhika Patel, Aleksandar Obradovic, Corey Hansen, Joanna Jacków, Janielle Maynard, Karen Sfanos, Cory Abate-Shen, Charles Bieberich, Paula Hurley, Mark Selby, Alan Korman, Angela Christiano, Angelo De Marzo, Charles Drake .  2021.   Castration-mediated IL-8 promotes myeloid infiltration and prostate cancer progression.. Nat Cancer. 2 (8) :803-818 ▶ Go to Pubmed
Víctor Arrieta, Andrew Chen, Robert Kane, Seong Kang, Cynthia Kassab, Crismita Dmello, Junfei Zhao, Kirsten Burdett, Pavan Upadhyayula, Catalina Lee-Chang, Joseph Shilati, Dinesh Jaishankar, Li Chen, Andrew Gould, Daniel Zhang, Jinzhou Yuan, Wenting Zhao, Xiaoyang Ling, Jared Burks, Brice Laffleur, Christina Amidei, Jeffrey Bruce, Rimas Lukas V, Jonathan Yamaguchi, David Cieremans, Gerson Rothschild, Uttiya Basu, Matthew McCord, Daniel Brat, Hui Zhang, Lee Cooper, Bin Zhang, Peter Sims, Tim Cloughesy, Robert Prins, Peter Canoll, Roger Stupp, Amy Heimberger, Craig Horbinski, Fabio Iwamoto, Raul Rabadan, Adam Sonabend .  2021.   ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma.. Nature cancer. 2 (12) :1372-1386 ▶ Go to Pubmed
Víctor Arrieta, Andrew Chen, Robert Kane, Seong Kang, Cynthia Kassab, Crismita Dmello, Junfei Zhao, Kirsten Burdett, Pavan Upadhyayula, Catalina Lee-Chang, Joseph Shilati, Dinesh Jaishankar, Li Chen, Andrew Gould, Daniel Zhang, Jinzhou Yuan, Wenting Zhao, Xiaoyang Ling, Jared Burks, Brice Laffleur, Christina Amidei, Jeffrey Bruce, Rimas Lukas V, Jonathan Yamaguchi, David Cieremans, Gerson Rothschild, Uttiya Basu, Matthew McCord, Daniel Brat, Hui Zhang, Lee Cooper, Bin Zhang, Peter Sims, Tim Cloughesy, Robert Prins, Peter Canoll, Roger Stupp, Amy Heimberger, Craig Horbinski, Fabio Iwamoto, Raul Rabadan, Adam Sonabend .  2021.   ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma.. Nat Cancer. 2 (12) :1372-1386 ▶ Go to Pubmed
Daniel Freedberg, Miles Richardson, Mary Nattakom, Jacky Cheung, Elissa Lynch, Philip Zachariah, Harris Wang .  2022.   Are There Bad ICU Rooms? Temporal Relationship between Patient and ICU Room Microbiome, and Influence on Vancomycin-Resistant Colonization.. mSphere. 7 (1) :e0100721 ▶ Go to Pubmed
Daniel Freedberg, Miles Richardson, Mary Nattakom, Jacky Cheung, Elissa Lynch, Philip Zachariah, Harris Wang .  2022.   Are There Bad ICU Rooms? Temporal Relationship between Patient and ICU Room Microbiome, and Influence on Vancomycin-Resistant Colonization.. mSphere. 7 (1) :e0100721 ▶ Go to Pubmed
Daniel Freedberg, Miles Richardson, Mary Nattakom, Jacky Cheung, Elissa Lynch, Philip Zachariah, Harris Wang .  2022.   Are There Bad ICU Rooms? Temporal Relationship between Patient and ICU Room Microbiome, and Influence on Vancomycin-Resistant Colonization.. mSphere. 7 (1) :e0100721 ▶ Go to Pubmed
Eugene Douglass, Robert Allaway, Bence Szalai, Wenyu Wang, Tingzhong Tian, Adrià Fernández-Torras, Ron Realubit, Charles Karan, Shuyu Zheng, Alberto Pessia, Ziaurrehman Tanoli, Mohieddin Jafari, Fangping Wan, Shuya Li, Yuanpeng Xiong, Miquel Duran-Frigola, Martino Bertoni, Pau Badia-I-Mompel, Lídia Mateo, Oriol Guitart-Pla, Verena Chung, DREAM Consortium, Jing Tang, Jianyang Zeng, Patrick Aloy, Julio Saez-Rodriguez, Justin Guinney, Daniela Gerhard, Andrea Califano .  2022.   A community challenge for a pancancer drug mechanism of action inference from perturbational profile data.. Cell reports. Medicine. 3 (1) :100492 ▶ Go to Pubmed
Bhairavi Swaminathan, Seock-Won Youn, L Naiche, Jing Du, Stephanie Villa, Jordan Metz, Huijuan Feng, Chaolin Zhang, Raphael Kopan, Peter Sims, Jan Kitajewski .  2022.   Endothelial Notch signaling directly regulates the small GTPase RND1 to facilitate Notch suppression of endothelial migration.. Scientific reports. 12 (1) :1655 ▶ Go to Pubmed
Elise Flynn, Athena Tsu, Silva Kasela, Sarah Kim-Hellmuth, François Aguet, Kristin Ardlie, Harmen Bussemaker, Pejman Mohammadi, Tuuli Lappalainen .  2022.   Transcription factor regulation of eQTL activity across individuals and tissues.. PLoS genetics. 18 (1) :e1009719 ▶ Go to Pubmed
Benjamin Hobson, Se Choi, Eugene Mosharov V, Rajesh Soni, David Sulzer, Peter Sims .  2022.   Subcellular proteomics of dopamine neurons in the mouse brain.. eLife. 11 ▶ Go to Pubmed
Marta Galán-Díez, Florence Borot, Abdullah Ali, Junfei Zhao, Eva Gil-Iturbe, Xiaochuan Shan, Na Luo, Yongfeng Liu, Xi-Ping Huang, Brygida Bisikirska, Rossella Labella, Irwin Kurland, Bryan Roth, Matthias Quick, Siddhartha Mukherjee, Raul Rabadan, Martin Carroll, Azra Raza, Stavroula Kousteni .  2022.   Subversion of Serotonin Receptor Signaling in Osteoblasts by Kynurenine Drives Acute Myeloid Leukemia.. Cancer discovery. 12 (4) :1106-1127 ▶ Go to Pubmed
Smadar Shilo, Anastasia Godneva, Marianna Rachmiel, Tal Korem, Yuval Bussi, Dmitry Kolobkov, Tal Karady, Noam Bar, Bat Wolf, Yitav Glantz-Gashai, Michal Cohen, Nehama Zuckerman-Levin, Naim Shehadeh, Noah Gruber, Neriya Levran, Shlomit Koren, Adina Weinberger, Orit Pinhas-Hamiel, Eran Segal .  2022.   The Gut Microbiome of Adults With Type 1 Diabetes and Its Association With the Host Glycemic Control.. Diabetes care. 45 (3) :555-563 ▶ Go to Pubmed
Panagiota Agrafioti, Joshua Morin-Baxter, Kranthi Tanagala, Sunil Dubey, Peter Sims, Evanthia Lalla, Fatemeh Momen-Heravi .  2022.   Decoding the role of macrophages in periodontitis and type 2 diabetes using single-cell RNA-sequencing.. FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 36 (2) :e22136 ▶ Go to Pubmed
Benjamin Hobson, Linghao Kong, Maria Angelo, Ori Lieberman, Eugene Mosharov V, Etienne Herzog, David Sulzer, Peter Sims .  2022.   Subcellular and regional localization of mRNA translation in midbrain dopamine neurons.. Cell reports. 38 (2) :110208 ▶ Go to Pubmed
Lihong Liu, Sho Iketani, Yicheng Guo, Jasper Chan, Maple Wang, Liyuan Liu, Yang Luo, Hin Chu, Yiming Huang, Manoj Nair, Jian Yu, Kenn Chik, Terrence Yuen, Chaemin Yoon, Kelvin To, Honglin Chen, Michael Yin, Magdalena Sobieszczyk, Yaoxing Huang, Harris Wang, Zizhang Sheng, Kwok-Yung Yuen, David Ho .  2022.   Striking antibody evasion manifested by the Omicron variant of SARS-CoV-2.. Nature. 602 (7898) :676-681 ▶ Go to Pubmed
John Christin, Michael Shen .  2022.   Modeling tumor plasticity in organoid models of human cancer.. Trends in cancer. 8 (3) :161-163 ▶ Go to Pubmed
Tyler Joseph, Philippe Chlenski, Aviya Litman, Tal Korem, Itsik Pe'er .  2022.   Accurate and robust inference of microbial growth dynamics from metagenomic sequencing reveals personalized growth rates.. Genome research. 32 (3) :558-568 ▶ Go to Pubmed
Jinsook Son, Hongxu Ding, Thomas Farb, Alexander Efanov, Jiajun Sun, Julie Gore, Samreen Syed, Zhigang Lei, Qidi Wang, Domenico Accili, Andrea Califano .  2021.   BACH2 inhibition reverses β cell failure in type 2 diabetes models.. J Clin Invest. 131 (24) ▶ Go to Pubmed
Ross McBee, Matt Lucht, Nikita Mukhitov, Miles Richardson, Tarun Srinivasan, Dechuan Meng, Haorong Chen, Andrew Kaufman, Max Reitman, Christian Munck, Damen Schaak, Christopher Voigt, Harris Wang .  2022.   Engineering living and regenerative fungal-bacterial biocomposite structures.. Nature materials. 21 (4) :471-478 ▶ Go to Pubmed
Maya Poon, Eve Byington, Wenzhao Meng, Masaru Kubota, Rei Matsumoto, Alba Grifoni, Daniela Weiskopf, Pranay Dogra, Nora Lam, Peter Szabo, Basak Ural, Steven Wells, Aaron Rosenfeld, Maigan Brusko, Todd Brusko, Thomas Connors, Alessandro Sette, Peter Sims, Eline Prak, Yufeng Shen, Donna Farber .  2021.   Heterogeneity of human anti-viral immunity shaped by virus, tissue, age, and sex.. Cell reports. 37 (9) :110071 ▶ Go to Pubmed
Carlotta Ronda, Harris Wang .  2022.   Engineering temporal dynamics in microbial communities.. Current opinion in microbiology. 65 :47-55 ▶ Go to Pubmed
Carlotta Ronda, Harris Wang .  2022.   Engineering temporal dynamics in microbial communities.. Current opinion in microbiology. 65 :47-55 ▶ Go to Pubmed
Carlotta Ronda, Harris Wang .  2022.   Engineering temporal dynamics in microbial communities.. Current opinion in microbiology. 65 :47-55 ▶ Go to Pubmed
Carlotta Ronda, Harris Wang .  2022.   Engineering temporal dynamics in microbial communities.. Current opinion in microbiology. 65 :47-55 ▶ Go to Pubmed
Andrew Lassman, Patrick Wen, Martin van den Bent, Scott Plotkin, Annemiek Walenkamp, Adam Green, Kai Li, Christopher Walker, Hua Chang, Sharon Tamir, Leah Henegar, Yao Shen, Mariano Alvarez, Andrea Califano, Yosef Landesman, Michael Kauffman, Sharon Shacham, Morten Mau-Sørensen .  2022.   A Phase II Study of the Efficacy and Safety of Oral Selinexor in Recurrent Glioblastoma.. Clin Cancer Res. 28 (3) :452-460 ▶ Go to Pubmed
Laura Crowley, Michael Shen .  2022.   Heterogeneity and complexity of the prostate epithelium: New findings from single-cell RNA sequencing studies.. Cancer Lett. 525 :108-114 ▶ Go to Pubmed
Smadar Shilo, Anastasia Godneva, Marianna Rachmiel, Tal Korem, Dmitry Kolobkov, Tal Karady, Noam Bar, Bat Wolf, Yitav Glantz-Gashai, Michal Cohen, Nehama Levin, Naim Shehadeh, Noah Gruber, Neriya Levran, Shlomit Koren, Adina Weinberger, Orit Pinhas-Hamiel, Eran Segal .  2022.   Prediction of Personal Glycemic Responses to Food for Individuals With Type 1 Diabetes Through Integration of Clinical and Microbial Data.. Diabetes care. 45 (3) :502-511 ▶ Go to Pubmed
Heike Blockus, Sebi Rolotti V, Miklos Szoboszlay, Eugénie Peze-Heidsieck, Tiffany Ming, Anna Schroeder, Nuno Apostolo, Kristel Vennekens, Phinikoula Katsamba, Fabiana Bahna, Seetha Mannepalli, Goran Ahlsen, Barry Honig, Lawrence Shapiro, Joris de Wit, Attila Losonczy, Franck Polleux .  2021.   Synaptogenic activity of the axon guidance molecule Robo2 underlies hippocampal circuit function.. Cell Rep. 37 (3) :109828 ▶ Go to Pubmed
Mohammed AlQuraishi, Peter Sorger .  2021.   Differentiable biology: using deep learning for biophysics-based and data-driven modeling of molecular mechanisms.. Nat Methods. 18 (10) :1169-1180 ▶ Go to Pubmed
Evgeniya Schastnaya, Zrinka Nakic, Christoph Gruber, Peter Doubleday, Aarti Krishnan, Nathan Johns, Jimin Park, Harris Wang, Uwe Sauer .  2021.   Extensive regulation of enzyme activity by phosphorylation in Escherichia coli.. Nature communications. 12 (1) :5650 ▶ Go to Pubmed
Soonbum Park, Lijie Rong, Tomasz Owczarek, Matteo Di Bernardo, Rivka Shoulson, Chee-Wai Chua, Jaime Kim, Amir Lankarani, Prithi Chakrapani, Talal Syed, James McKiernan, David Solit, Michael Shen, Hikmat Al-Ahmadie, Cory Abate-Shen .  2021.   Novel mouse models of bladder cancer identify a prognostic signature associated with risk of disease progression.. Cancer Res. ▶ Go to Pubmed
Camila Prieto, Diu Nguyen, Zhaoqi Liu, Justin Wheat, Alexendar Perez, Saroj Gourkanti, Timothy Chou, Ersilia Barin, Anthony Velleca, Thomas Rohwetter, Arthur Chow, James Taggart, Angela Savino, Katerina Hoskova, Meera Dhodapkar, Alexandra Schurer, Trevor Barlowe, Ly Vu, Christina Leslie, Ulrich Steidl, Raul Rabadan, Michael Kharas .  2021.   Transcriptional control of CBX5 by the RNA binding proteins RBMX and RBMXL1 maintains chromatin state in myeloid leukemia.. Nat Cancer. 2 :741-757 ▶ Go to Pubmed
Edgar González-Buendia, Junfei Zhao, Lu Wang, Subhas Mukherjee, Daniel Zhang, Víctor Arrieta, Eric Feldstein, Robert Kane, Seong Kang, Catalina Lee-Chang, Aayushi Mahajan, Li Chen, Ronald Realubit, Charles Karan, Lisa Magnuson, Craig Horbinski, Stacy Marshall, Jann Sarkaria, Ahmed Mohyeldin, Ichiro Nakano, Mukesh Bansal, Charles James, Daniel Brat, Atique Ahmed, Peter Canoll, Raul Rabadan, Ali Shilatifard, Adam Sonabend .  2021.   TOP2B Enzymatic Activity on Promoters and Introns Modulates Multiple Oncogenes in Human Gliomas.. Clin Cancer Res. ▶ Go to Pubmed
Jimin Park, Harris Wang .  2021.   Systematic dissection of σ sequence diversity and function in bacteria.. Cell reports. 36 (8) :109590 ▶ Go to Pubmed
Claudia Capdevila, Maria Trifas, Jonathan Miller, Troy Anderson, Peter Sims, Kelley Yan .  2021.   Cellular origins and lineage relationships of the intestinal epithelium.. American journal of physiology. Gastrointestinal and liver physiology. 321 (4) :G413-G425 ▶ Go to Pubmed
Mohammed AlQuraishi .  2021.   Protein-structure prediction revolutionized.. Nature. 596 (7873) :487-488 ▶ Go to Pubmed
Karen Gomez, Raul Rabadan .  2021.   A persistent look at how tumours evade therapy.. Nature. 596 (7873) :491-493 ▶ Go to Pubmed
Juan Patiño-Galindo, Ioan Filip, Ratul Chowdhury, Costas Maranas, Peter Sorger, Mohammed AlQuraishi, Raul Rabadan .  2021.   Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2.. Genome Med. 13 (1) :124 ▶ Go to Pubmed
Nazim Bouatta, Peter Sorger, Mohammed AlQuraishi .  2021.   Protein structure prediction by AlphaFold2: are attention and symmetries all you need?. Acta Crystallogr D Struct Biol. 77 (Pt 8) :982-991 ▶ Go to Pubmed
Daniel Landsburg, Stefan Barta, Radhakrishnan Ramchandren, Connie Batlevi, Swaminathan Iyer, Kevin Kelly, Ivana Micallef, Sonali Smith, Don Stevens, Mariano Alvarez, Andrea Califano, Yao Shen, Gideon Bosker, Jefferson Parker, Raul Soikes, Elizabeth Martinez, Reinhard von Roemeling, Robert Martell, Yasuhiro Oki .  2021.   Fimepinostat (CUDC-907) in patients with relapsed/refractory diffuse large B cell and high-grade B-cell lymphoma: report of a phase 2 trial and exploratory biomarker analyses.. Br J Haematol. ▶ Go to Pubmed
Kendra Sweet, Bhavana Bhatnagar, Hartmut Döhner, Will Donnellan, Olga Frankfurt, Michael Heuser, Vamsi Kota, Hongtao Liu, Emmanuel Raffoux, Gail Roboz, Christoph Röllig, Margaret Showel, Stephen Strickland, Susana Vives, Shijie Tang, Thaddeus Unger, Anita Joshi, Yao Shen, Mariano Alvarez, Andrea Califano, Marsha Crochiere, Yosef Landesman, Michael Kauffman, Jatin Shah, Sharon Shacham, Michael Savona, Pau Montesinos .  2021.   A 2:1 randomized, open-label, phase II study of selinexor vs. physician's choice in older patients with relapsed or refractory acute myeloid leukemia.. Leuk Lymphoma. :1-12 ▶ Go to Pubmed
Gulam Manji, Brian Van Tine, Shing Lee, Alexander Raufi, Ilenia Pellicciotta, Angela Hirbe, Jaya Pradhan, Andrew Chen, Raul Rabadan, Gary Schwartz .  2021.   A Phase I Study of the Combination of Pexidartinib and Sirolimus to Target Tumor-Associated Macrophages in Unresectable Sarcoma and Malignant Peripheral Nerve Sheath Tumors.. Clin Cancer Res. ▶ Go to Pubmed
Arianna Giacobbe, Cory Abate-Shen .  2021.   Modeling metastasis in mice: a closer look.. Trends Cancer. 7 (10) :916-929 ▶ Go to Pubmed
Jimin Park, Sung Yim, Harris Wang .  2021.   High-Throughput Transcriptional Characterization of Regulatory Sequences from Bacterial Biosynthetic Gene Clusters.. ACS synthetic biology. 10 (8) :1859-1873 ▶ Go to Pubmed
Kaiyi Zhu, Lingyi Cai, Chenqian Cui, Juan Toyos, Dimitris Anastassiou .  2021.   Single-cell analysis reveals the pan-cancer invasiveness-associated transition of adipose-derived stromal cells into COL11A1-expressing cancer-associated fibroblasts.. PLoS Comput Biol. 17 (7) :e1009228 ▶ Go to Pubmed
Regina Troyanovsky, Alina Sergeeva, Indrajyoti Indra, Chi-Shuo Chen, Rei Kato, Lawrence Shapiro, Barry Honig, Sergey Troyanovsky .  2021.   Sorting of cadherin-catenin-associated proteins into individual clusters.. Proceedings of the National Academy of Sciences of the United States of America. 118 (29) ▶ Go to Pubmed
Regina Troyanovsky, Alina Sergeeva, Indrajyoti Indra, Chi-Shuo Chen, Rei Kato, Lawrence Shapiro, Barry Honig, Sergey Troyanovsky .  2021.   Sorting of cadherin-catenin-associated proteins into individual clusters.. Proc Natl Acad Sci U S A. 118 (29) ▶ Go to Pubmed
Seth Taylor, Gabriel Santpere, Alexis Weinreb, Alec Barrett, Molly Reilly, Chuan Xu, Erdem Varol, Panos Oikonomou, Lori Glenwinkel, Rebecca McWhirter, Abigail Poff, Manasa Basavaraju, Ibnul Rafi, Eviatar Yemini, Steven Cook, Alexander Abrams, Berta Vidal, Cyril Cros, Saeed Tavazoie, Nenad Sestan, Marc Hammarlund, Oliver Hobert, David Miller .  2021.   Molecular topography of an entire nervous system.. Cell. 184 (16) :4329-4347.e23 ▶ Go to Pubmed
Zoila Lopez-Bujanda, Aleksandar Obradovic, Thomas Nirschl, Laura Crowley, Rodney Macedo, Alexandros Papachristodoulou, Timothy O'Donnell, Uri Laserson, Jelani Zarif, Ran Reshef, Tiezheng Yuan, Mithil Soni, Emmanuel Antonarakis, Michael Haffner, Benjamin Larman, Michael Shen, Pawel Muranski, Charles Drake .  2021.   TGM4: an immunogenic prostate-restricted antigen.. J Immunother Cancer. 9 (6) ▶ Go to Pubmed
Qing Meng, Qiuqiang Gao, Shebli Mehrazarin, Kamonchanok Tangwanichgapong, Yu Wang, Yiming Huang, Yutong Pan, Samuel Robinson, Ziwen Liu, Amirali Zangiabadi, Renate Lux, Panos Papapanou, Edward Guo, Harris Wang, Luke Berchowitz, Yiping Han .  2021.   Fusobacterium nucleatum secretes amyloid-like FadA to enhance pathogenicity.. EMBO reports. 22 (7) :e52891 ▶ Go to Pubmed
Peter Freddolino, Haley Amemiya, Thomas Goss, Saeed Tavazoie .  2021.   Dynamic landscape of protein occupancy across the Escherichia coli chromosome.. PLoS Biol. 19 (6) :e3001306 ▶ Go to Pubmed
Matthew Kearney, Lauren Franks, Shing Lee, Amy Tiersten, Della Makower, Tessa Cigler, Prabhjot Mundi, Dow-Chung Chi, Anupama Goel, Pam Klein, Eleni Andreopoulou, Joseph Sparano, Meghna Trivedi, Melissa Accordino, Andrea Califano, Dawn Hershman, Jose Silva, Kevin Kalinsky .  2021.   Phase I/II trial of ruxolitinib in combination with trastuzumab in metastatic HER2 positive breast cancer.. Breast Cancer Res Treat. 189 (1) :177-185 ▶ Go to Pubmed
Hans Koss, Barry Honig, Lawrence Shapiro, Arthur Palmer .  2021.   Dimerization of Cadherin-11 involves multi-site coupled unfolding and strand swapping.. Structure. ▶ Go to Pubmed
Weiping Li, Michael Shen .  2022.   Prostate cancer cell heterogeneity and plasticity: Insights from studies of genetically-engineered mouse models.. Semin Cancer Biol. 82 :60-67 ▶ Go to Pubmed
Delin Chen, Bo Chu, Xin Yang, Zhaoqi Liu, Ying Jin, Ning Kon, Raul Rabadan, Xuejun Jiang, Brent Stockwell, Wei Gu .  2021.   iPLA2β-mediated lipid detoxification controls p53-driven ferroptosis independent of GPX4.. Nat Commun. 12 (1) :3644 ▶ Go to Pubmed
Silvia Affo, Ajay Nair, Francesco Brundu, Aashreya Ravichandra, Sonakshi Bhattacharjee, Michitaka Matsuda, LiKang Chin, Aveline Filliol, Wen Wen, Xinhua Song, Aubrianna Decker, Jeremy Worley, Jorge Caviglia, Lexing Yu, Deqi Yin, Yoshinobu Saito, Thomas Savage, Rebecca Wells, Matthias Mack, Lars Zender, Nicholas Arpaia, Helen Remotti, Raul Rabadan, Peter Sims, Anne-Laure Leblond, Achim Weber, Marc-Oliver Riener, Brent Stockwell, Jellert Gaublomme, Josep Llovet, Raghu Kalluri, George Michalopoulos, Ekihiro Seki, Daniela Sia, Xin Chen, Andrea Califano, Robert Schwabe .  2021.   Promotion of cholangiocarcinoma growth by diverse cancer-associated fibroblast subpopulations.. Cancer Cell. 39 (6) :883 ▶ Go to Pubmed
Silvia Affo, Ajay Nair, Francesco Brundu, Aashreya Ravichandra, Sonakshi Bhattacharjee, Michitaka Matsuda, LiKang Chin, Aveline Filliol, Wen Wen, Xinhua Song, Aubrianna Decker, Jeremy Worley, Jorge Caviglia, Lexing Yu, Deqi Yin, Yoshinobu Saito, Thomas Savage, Rebecca Wells, Matthias Mack, Lars Zender, Nicholas Arpaia, Helen Remotti, Raul Rabadan, Peter Sims, Anne-Laure Leblond, Achim Weber, Marc-Oliver Riener, Brent Stockwell, Jellert Gaublomme, Josep Llovet, Raghu Kalluri, George Michalopoulos, Ekihiro Seki, Daniela Sia, Xin Chen, Andrea Califano, Robert Schwabe .  2021.   Promotion of cholangiocarcinoma growth by diverse cancer-associated fibroblast subpopulations.. Cancer cell. 39 (6) :883 ▶ Go to Pubmed
Luigi Scotto, Cristina Kinahan, Eugene Douglass, Changchun Deng, Maryam Safari, Beatrice Casadei, Enrica Marchi, Jennifer Lue, Francesca Montanari, Lorenzo Falchi, Changhong Qiao, Nandakumar Renu, Susan Bates, Andrea Califano, Owen O'Connor .  2021.   Targeting the T-Cell Lymphoma Epigenome Induces Cell Death, Cancer Testes Antigens, Immune-Modulatory Signaling Pathways.. Mol Cancer Ther. 20 (8) :1422-1430 ▶ Go to Pubmed
Juan Arriaga, Sukanya Panja, Mohammed Alshalalfa, Junfei Zhao, Min Zou, Arianna Giacobbe, Chioma Madubata, Jaime Kim, Antonio Rodriguez, Ilsa Coleman, Renu Virk, Hanina Hibshoosh, Onur Ertunc, Büşra Ozbek, Julia Fountain, Jeffrey Karnes, Jun Luo, Emmanuel Antonarakis, Peter Nelson, Felix Feng, Mark Rubin, Angelo De Marzo, Raul Rabadan, Peter Sims, Antonina Mitrofanova, Cory Abate-Shen .  2020.   A MYC and RAS co-activation signature in localized prostate cancer drives bone metastasis and castration resistance.. Nature cancer. 1 (11) :1082-1096 ▶ Go to Pubmed
Juan Arriaga, Sukanya Panja, Mohammed Alshalalfa, Junfei Zhao, Min Zou, Arianna Giacobbe, Chioma Madubata, Jaime Kim, Antonio Rodriguez, Ilsa Coleman, Renu Virk, Hanina Hibshoosh, Onur Ertunc, Büşra Ozbek, Julia Fountain, Jeffrey Karnes, Jun Luo, Emmanuel Antonarakis, Peter Nelson, Felix Feng, Mark Rubin, Angelo De Marzo, Raul Rabadan, Peter Sims, Antonina Mitrofanova, Cory Abate-Shen .  2020.   A MYC and RAS co-activation signature in localized prostate cancer drives bone metastasis and castration resistance.. Nat Cancer. 1 (11) :1082-1096 ▶ Go to Pubmed
Marco Fangazio, Erik Ladewig, Karen Gomez, Laura Garcia-Ibanez, Rahul Kumar, Julie Teruya-Feldstein, Davide Rossi, Ioan Filip, Qiang Pan-Hammarström, Giorgio Inghirami, Renzo Boldorini, German Ott, Annette Staiger, Björn Chapuy, Gianluca Gaidano, Govind Bhagat, Katia Basso, Raul Rabadan, Laura Pasqualucci, Riccardo Dalla-Favera .  2021.   Genetic mechanisms of HLA-I loss and immune escape in diffuse large B cell lymphoma.. Proc Natl Acad Sci U S A. 118 (22) ▶ Go to Pubmed
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Andrew Chen, Robyn Gartrell, Junfei Zhao, Pavan Upadhyayula, Wenting Zhao, Jinzhou Yuan, Hanna Minns, Athanassios Dovas, Jeffrey Bruce, Anna Lasorella, Antonio Iavarone, Peter Canoll, Peter Sims, Raul Rabadan .  2021.   Single-cell characterization of macrophages in glioblastoma reveals MARCO as a mesenchymal pro-tumor marker.. Genome Med. 13 (1) :88 ▶ Go to Pubmed
Silvia Affo, Ajay Nair, Francesco Brundu, Aashreya Ravichandra, Sonakshi Bhattacharjee, Michitaka Matsuda, LiKang Chin, Aveline Filliol, Wen Wen, Xinhua Song, Aubrianna Decker, Jeremy Worley, Jorge Caviglia, Lexing Yu, Deqi Yin, Yoshinobu Saito, Thomas Savage, Rebecca Wells, Matthias Mack, Lars Zender, Nicholas Arpaia, Helen Remotti, Raul Rabadan, Peter Sims, Anne-Laure Leblond, Achim Weber, Marc-Oliver Riener, Brent Stockwell, Jellert Gaublomme, Josep Llovet, Raghu Kalluri, George Michalopoulos, Ekihiro Seki, Daniela Sia, Xin Chen, Andrea Califano, Robert Schwabe .  2021.   Promotion of cholangiocarcinoma growth by diverse cancer-associated fibroblast subpopulations.. Cancer Cell. 39 (6) :866-882.e11 ▶ Go to Pubmed
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Christine Moon, Clara Reglero, Jose Cortes, Aidan Quinn, Silvia Alvarez, Junfei Zhao, Wen-Hsuan Lin, Anisha Cooke, Francesco Abate, Craig Soderquist, Claudia Fiñana, Giorgio Inghirami, Elias Campo, Govind Bhagat, Raul Rabadan, Teresa Palomero, Adolfo Ferrando .  2021.   induces NF-κB signaling-driven peripheral T cell lymphoma.. Nat Cancer. 2 (1) :98-113 ▶ Go to Pubmed
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Peter Szabo, Pranay Dogra, Joshua Gray, Steven Wells, Thomas Connors, Stuart Weisberg, Izabela Krupska, Rei Matsumoto, Maya Poon, Emma Idzikowski, Sinead Morris, Chloé Pasin, Andrew Yates, Amy Ku, Michael Chait, Julia Davis-Porada, Xinzheng Guo V, Jing Zhou, Matthew Steinle, Sean Mackay, Anjali Saqi, Matthew Baldwin, Peter Sims, Donna Farber .  2021.   Longitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19.. Immunity. 54 (4) :797-814.e6 ▶ Go to Pubmed
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