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N Abuaf, F Leynadier, H Luce, J Dry .  1981.   Haemoglobin content of multilayer E rosettes is a parameter of activated human T lymphocytes.. Clinical and experimental immunology. 44 (1) :145-51 ▶ Go to Pubmed
H Kita, Y Oomura .  1981.   Reciprocal connections between the lateral hypothalamus and the frontal complex in the rat: electrophysiological and anatomical observations.. Brain research. 213 (1) :1-16 ▶ Go to Pubmed
Anshul Saini, Dinara Usmanova, Rydberg Escalante, Dennis Vitkup .  2026.   Multiple molecular and cellular properties jointly affect protein and site-specific evolutionary rates.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Daniel Moakley, Ye Wang, Chaolin Zhang .  2026.   Onconeural antigen NOVA1 dysregulates RNA alternative splicing in breast cancer.. RNA (New York, N.Y.). ▶ Go to Pubmed
Peter Szabo, Hanna Levitin, Siddhi Nargund, Thomas Connors, David Chen, Jenny Jin, Puspa Thapa, Rebecca Guyer, Daniel Caron, Joshua Gray, Rei Matsumoto, Masaru Kubota, Maigan Brusko, Todd Brusko, Donna Farber, Peter Sims .  2026.   Distinct transcription factors control tissue adaptation and effector function in infant and adult memory T cells.. Nature immunology. ▶ Go to Pubmed
Francisca de Almeida, Alessandro Vasciaveo, Arianna Giacobbe, Matteo Di Bernardo, Min Zou, Ainsley Antao, Simone de Brot, Antonio Rodriguez-Calero, Alexander Chui, Alexander Wang, Nicolas Floc'h, Jaime Kim, Soonbum Park, Stephanie Afari, Timur Mukhammadov, Nicholas Ortega, Sai Josyula, Juan Arriaga, Jingqiang Wang, Jinqiu Lu, Michael Shen, Mark Rubin, Andrea Califano, Cory Abate-Shen .  2026.   A forward genetic screen identifies Sirtuin1 as a driver of neuroendocrine prostate cancer.. The Journal of experimental medicine. 223 (7) ▶ Go to Pubmed
Anthony Tang, Matthew Warren, Peter Chabot, Damian Teasley, Nicholas Dadario, Angeliki Mela, Misha Amini, Nathaniel Rolfe, Alan Chen, Nkechime Ifediora, Ashwin Viswanathan, Melanie Kristt, Athanassios Dovas, Brianna Pereira, Abby Brand, August Kahle, Nelson Humala, Clara Stucke, Julia Furnari, Corina Kotidis, Hannah Haile, Nadine Khoury, Arjun Adapa, Nathan Winans, Michael Argenziano, Colin Sperring, Nina Yoh, Justin Neira, Brian Gill, Jack Grinband, Peter Sims, Osama Dalahmah, Liang Lei, Peter Canoll, Jeffrey Bruce .  2026.   Paired Tumor Biopsies Reveal Spatiotemporal Myeloid Remodeling After Local Chemotherapy in Glioblastoma.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Joseph Cunningham, Grigoriy Koytiger, Peter Sorger, Mohammed AlQuraishi .  2026.   Author Correction: Biophysical prediction of protein-peptide interactions and signaling networks using machine learning.. Nature methods. ▶ Go to Pubmed
Katyna Del Real, Vinay Swamy, Josefina Arcagni, Eric Wang, Raul Rabadan, Angel Rubio .  2026.   Foundation models and deep learning for cancer drug response prediction: a framework for data, metrics, and validation.. Briefings in bioinformatics. 27 (3) ▶ Go to Pubmed
Yeqing Lin, Minji Lee, Aakarsh Vermani, Ellena Jiang, Sebastiaan De Cooman, Matej Špetko, Mohammed AlQuraishi .  2026.   Fast and Ultra-Capable Protein Design: Advancing the Frontier Through Atomistic SE(3)-Equivariance with Genie 3.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Eric Bogenschutz, Cynthia Carpenter, Ameleen Wong, Kristina Palmer, Aalekh Mehta, Yannick Ledermann, Caleb Heffner, Kathy Snow, Carol Bult, Yufeng Shen, Patricia Donahoe, Samuel Rowbotham, Frances High, Wendy Chung, Stephen Murray .  2026.   Modeling patient variants of and results in distinct forms of congenital diaphragmatic hernia in mice.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Wan Li, Menghan Liu, Panos Oikonomou, Sydney Blattman, Mirela Berisa, Falguni Paul, Julia Hettleman, Joseph Gonzalez, Qiaoyu Hu, Howe Chen, Saeed Tavazoie, Wenyan Jiang .  2026.   The genetic landscape of antibiotic sensitivity in .. Science advances. 12 (19) :eaeb9875 ▶ Go to Pubmed
Jared Sampson, Alina Sergeeva, Tianyang Gao, Young Kwon, Eswar Reddem, Fabiana Bahna, Seetha Mannepalli, Baoshan Zhang, Peter Kwong, Lawrence Shapiro, Barry Honig, Richard Friesner .  2026.   A functional investigation of antibody Fc-FcRn variant binding guided by free energy perturbation methods.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Minji Lee, Colin Kalicki, Minkyu Jeon, Aymen Qabel, Alisia Fadini, Mohammed AlQuraishi .  2026.   ConforNets: Latents-Based Conformational Control in OpenFold3.. ArXiv. ▶ Go to Pubmed
Liyuan Liu, Charlotte Rochereau, Simon Kozlov, Guillaume Urtecho, Xiaonan Liu, Jiahui Zhao, Jasmine Wang, Yiming Huang, Yiming Qu, Zetian Zhang, Tomasz Blazejewski, Avi Swartz, Sergey Ovchinnikov, Harris Wang .  2026.   Toward life with a 19-amino acid alphabet through generative artificial intelligence design.. Science (New York, N.Y.). 392 (6797) :eaeb5171 ▶ Go to Pubmed
Aziz Zafar, Chao Hou, Naufa Amirani, Yufeng Shen .  2026.   Molecular dynamics simulations of intrinsically disordered protein regions enable biophysical interpretation of variant-effect predictors.. HGG advances. 7 (3) :100618 ▶ Go to Pubmed
Ester Fernández, Lorenzo Tomassoni, Xu Zhang, Junqiang Wang, Aleksandar Obradovic, Pasquale Laise, Aaron Griffin, Lukas Vlahos, Hanna Minns, Diana Morales V, Christian Simmons, Matthew Gallitto, Hong-Jian Wei, Timothy Martins, Pamela Becker, John Crawford, Theophilos Tzaridis, Robert Wechsler-Reya, James Garvin, Robyn Gartrell, Luca Szalontay, Stergios Zacharoulis, Cheng-Chia Wu, Zhiguo Zhang, Andrea Califano, Jovana Pavisic .  2026.   Systematic design of combination therapy by targeting master regulators of coexisting diffuse midline glioma cell states.. Nature genetics. 58 (5) :1112-1125 ▶ Go to Pubmed
Mikhail Roshal, Isabella Kong, Wikum Dinalankara, Jonathan Reichel, Matthew Teater, Bhavneet Binder, Sakellarios Zairis, Joshua Brody, Sunita Park, Alexandra Kovach, Nitya Gulati, Matthew Oberley, Megan Lim, Matthew Barth, Olivier Elemento, Ari Melnick, Raul Rabadan, Amy Chadburn, Luigi Marchionni, Lisa Giulino-Roth, Ethel Cesarman .  2026.   Transcriptome sequencing of Hodgkin lymphoma Hodgkin and Reed-Sternberg cells reveals escape from NK cell recognition and an unfolded protein response.. Blood cancer journal. ▶ Go to Pubmed
Andrew Batuure, George Austin, Tal Korem .  2026.   Reply to Du: Differences in experimental setting make validation harder.. American journal of obstetrics & gynecology MFM. 8 (4) :101900 ▶ Go to Pubmed
Izaak Coleman, Jiong Ma, Gordon Qian, Yusheng Jiang, Aya Kav, Tal Korem .  2026.   End-to-end evaluation of pipelines for metagenome-assembled genomes reveals hidden performance gaps.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
H Zhao, C Velez, A Naravane, A Saha, J Feldman, J Skolnick, D Murray, B Honig .  2026.   Combining structural modeling and deep learning to calculate the E. coli protein interactome and functional networks.. Nature communications. 17 (1) ▶ Go to Pubmed
Mingxuan Zhang, Vinay Swamy, Rowan Cassius, Léo Dupire, Charilaos Kanatsoulis, Evan Paull, Mohammed AlQuraishi, Theofanis Karaletsos, Andrea Califano .  2026.   GREmLN: A Cellular Graph Structure Aware Transcriptomics Foundation Model.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Aakash Saha .  2026.   Proteome-wide prediction of interactions between structured domains and peptide motifs reveals functionally coherent subnetworks.. Proceedings of the National Academy of Sciences of the United States of America. 123 (15) :e2527957123 ▶ Go to Pubmed
Alisia Fadini, Minhuan Li, Airlie McCoy, Suresh Banjara, Hiroki Okumura, Eve Napier, Pietro Fontana, Amir Khan, Luca Jovine, Thomas Terwilliger, Randy Read, Doeke Hekstra, Mohammed AlQuraishi .  2026.   AlphaFold as a prior: experimental structure determination conditioned on a pretrained neural network.. Nature methods. 23 (4) :785-795 ▶ Go to Pubmed
Miquel Anglada-Girotto, Carolina Segura-Morales, Daniel Moakley, Chaolin Zhang, Samuel Miravet-Verde, Andrea Califano, Luis Serrano .  2026.   Exon inclusion signatures enable accurate estimation of splicing factor activity.. Nature communications. 17 (1) ▶ Go to Pubmed
Miquel Anglada-Girotto, Carolina Segura-Morales, Daniel Moakley, Chaolin Zhang, Samuel Miravet-Verde, Andrea Califano, Luis Serrano .  2026.   Exon inclusion signatures enable accurate estimation of splicing factor activity.. Nature communications. 17 (1) ▶ Go to Pubmed
Darragh Kennedy, Wenting Zhao, Terry Chern, Michael Yang, Nicolas Acosta, Siddarth Arumugam, Pavan Upadhyayula, Julia Furnari, Athanassios Dovas, Jeffrey Bruce, Peter Canoll, Samuel Sia, Peter Sims .  2026.   Dissociable perfusion chip (DPC): perfusable microfluidic chip for single-cell screening of anti-cancer drugs in live glioblastoma explants.. Lab on a chip. 26 (7) :2266-2280 ▶ Go to Pubmed
Caroline Velez, Aniket Naravane, Victor Robila, Aakash Saha, Diana Murray, Barry Honig .  2026.   PrePPI - Structure-based Prediction of Protein-protein Interactomes and Networks.. Journal of molecular biology. :169735 ▶ Go to Pubmed
Shahd ElNaggar, Wenlong Chen, Leanne Prodehl, Thomas Marumo, Muhammed Khan, Christopher Mathew, Paul Ruff, Zhezhen Jin, Alfred Neugut, Anil Rustgi, Anne-Catrin Uhlemann, Tal Korem, Julian Abrams .  2026.   A generalizable cross-continent prediction of esophageal squamous cell carcinoma using the oral microbiome.. Communications medicine. 6 (1) ▶ Go to Pubmed
Zhenning Tang, Jufen Zhao, Xiaoying Huang, Qingyuan Liu, Yuchen Wang, Chaolin Zhang, Ling Li .  2026.   Single-cell RNA sequencing of adenoid cystic carcinoma of the breast reveals cellular heterogeneity and tumor microenvironment features.. BMC medical genomics. 19 (1) ▶ Go to Pubmed
Casey Ager, Aleksandar Obradovic, Patrick McCann, Matthew Chaimowitz, Alexander Wang, Neha Shaikh, Parin Shah, Samuel Pan, Caroline Laplaca, Renu Virk, Jessica Hill, Collin Jugler, Grace DeFranco, Nilika Bhattacharya, Kade Copple, Phuong Nguyen, Howard Scher, Guarionex DeCastro, Christopher Anderson, James McKiernan, Catherine Spina, Mark Stein, Karie Runcie, Charles Drake, Andrea Califano, Matthew Dallos .  2026.   Neoadjuvant Fc-enhanced anti-CTLA-4 targets Tregs to augment androgen deprivation in high-risk prostate cancer: A randomized phase I trial.. Cell reports. Medicine. 7 (3) :102638 ▶ Go to Pubmed
Arghamitra Talukder, Nicholas Keung, Itsik Pe'er, David Knowles .  2026.   CLADES - Contrastive Learning Augmented DifferEntial Splicing with Orthologous Positive Pairs.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Shah Alam, Georgia Dermentzaki, David Cabrera-Garcia, Miao Li, Ruizhi Wang, Melissa Campbell, Ilaria Balbo, Brittany Phillips, Min Li, Jessica Estrada, Marianna Zazhytska, Yow-Tyng Yeh, Lia Min, Elizabeth Rafikian, Elizabeth Valenzuela, Brian Joseph, Tulsi Patel, Dmytro Ustianenko, Helene Lovett, Huijuan Feng, Xiaojian Wang, Susan Brenner-Morton, Chyuan-Sheng Lin, Clarissa Waites, Hynek Wichterle, Lizhen Chen, Mu Yang, Edmund Au, Marko Jovanovic, Stavros Lomvardas, Paul Jenkins, Rui Yang, Sheng-Han Kuo, Yueqing Peng, Guang Yang, Neil Harrison, Chaolin Zhang .  2026.   A neuron type-specific microexon in Ank3/ankyrin-G modulates calcium activity and neuronal excitability.. Nature communications. ▶ Go to Pubmed
Shah Alam, Georgia Dermentzaki, David Cabrera-Garcia, Miao Li, Ruizhi Wang, Melissa Campbell, Ilaria Balbo, Brittany Phillips, Min Li, Jessica Estrada, Marianna Zazhytska, Yow-Tyng Yeh, Lia Min, Elizabeth Rafikian, Elizabeth Valenzuela, Brian Joseph, Tulsi Patel, Dmytro Ustianenko, Helene Lovett, Huijuan Feng, Xiaojian Wang, Susan Brenner-Morton, Chyuan-Sheng Lin, Clarissa Waites, Hynek Wichterle, Lizhen Chen, Mu Yang, Edmund Au, Marko Jovanovic, Stavros Lomvardas, Paul Jenkins, Rui Yang, Sheng-Han Kuo, Yueqing Peng, Guang Yang, Neil Harrison, Chaolin Zhang .  2026.   A neuron type-specific microexon in Ank3/ankyrin-G modulates calcium activity and neuronal excitability.. Nature communications. 17 (1) ▶ Go to Pubmed
Angeliki Mela, Abby Brand, Aayushi Mahajan, Athanassios Dovas, Nelson Humala, Smriti Kanangat, Allison Kleinstein, Sandra Leskinen, Trang Nguyen, Qiuqiang Gao, Pavan Upadhyayula, Jia Guo, Brian Gill, Markus Siegelin, Peter Sims, Brent Stockwell, Jeffrey Bruce, Peter Canoll .  2026.   IDH-mutant inhibitors enhance the sensitivity of IDH1-mutant gliomas to cysteine-methionine deprivation and ferroptosis.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Jiayu Su, Jun Fung, Haoyu Wang, Dian Yang, David Knowles, Raul Rabadan .  2026.   On the consistent and scalable detection of spatial patterns.. ArXiv. ▶ Go to Pubmed
Somnath Tagore, Samuel Tsang, Carla Tangermann, Lucas Hu, Sven Diederichs, Gordon Mills, Andrea Califano .  2026.   Pan-cancer inference and validation of hypermorphic, hypomorphic and neomorphic mutations.. Nature genetics. 58 (2) :329-340 ▶ Go to Pubmed
Sandeep Singhal, Chen Li, Andrew Aukerman, Mathieu Carriere, Michael Miller, Hanina Hibshoosh, Jasmine McDonald, Joy Winfield, Sai Aung, Gustavo Martinez-Delgado, Ziv Frankenstein, Young-Ho Lee, Raul Rabadan, Joel Saltz, Chao Chen, Kevin Gardner .  2026.   Topology-Based Biomarkers Accurately Predict Breast Cancer Outcome and Survival.. Cancer research. 86 (8) :2078-2093 ▶ Go to Pubmed
Mohammad Hussain, Sheng He, Heather Adams, Evdokia Anagnoustou, David Bellinger, Martina Brueckner, Wendy Chung, John Cleveland, Bruce Gelb, Elizabeth Goldmuntz, Donald Hagler, Hao Huang, Patrick McQuillen, Thomas Miller, Ami Norris-Brilliant, George Porter, Nina Thomas, Madalina Tivarus, Duan Xu, Yufeng Shen, Jane Newburger, Ellen Grant, Sarah Morton, Yangming Ou .  2026.   Machine learning to infer neurocognitive testing scores among adolescents and young adults with congenital heart disease.. Communications medicine. 6 (1) ▶ Go to Pubmed
Alberto Langtry, Raul Rabadan, Lola Alonso, Ioan Filip, Sergio Sabroso-Lasa, Ane Moreno-Oya, Rita Lawlor, Alfredo Carrato, Rafael Alvarez-Gallego, Mar Iglesias, Xavier Molero, Matthias Löhr, Christoph Michalski, José Perea, Michael O'Rorke, Victor Barberà, Adonina Tardón, Antoni Farré, Luís Muñoz-Bellvís, Tatjana Crnogorac-Jurcevic, Enrique Domínguez-Muñoz, Thomas Gress, William Greenhalf, Linda Sharp, Joaquim Balsells, Eithne Costello, Jörg Kleeff, Bo Kong, Josefina Mora, Damian O'Driscoll, Aldo Scarpa, Weimin Ye, Francisco Real, Evangelina de Maturana, Núria Malats, PanGenEU Investigators .  2026.   Publisher Correction: Deciphering the role of complement system genes in pancreatic cancer susceptibility and prognosis.. Nature communications. 17 (1) :1216 ▶ Go to Pubmed
Joseph Rupert, Lingyi Cai, Alexes Daquinag, Dimitris Anastassiou, Mikhail Kolonin .  2026.   Adipose Stromal Cell-Derived Cancer-Associated Fibroblasts Promote Pancreatic Adenocarcinoma Progression Through SFRP4 Signaling.. Cancers. 18 (2) ▶ Go to Pubmed
Chao Hou, Haiqing Zhao, Yufeng Shen .  2026.   Protein language models trained on biophysical dynamics inform mutation effects.. Proceedings of the National Academy of Sciences of the United States of America. 123 (4) :e2530466123 ▶ Go to Pubmed
Gidsela Luna, Jamie Verheyden, Chunting Tan, Estelle Kim, Ziai Zhu, Michelle Hwa, Jugraj Sahi, Yufeng Shen, Wendy Chung, David McCulley, Xin Sun .  2026.   MYRF controls mesothelium specification, signaling, and plasticity in lung development.. Developmental cell. 61 (3) :536-552.e4 ▶ Go to Pubmed
Lingting Shi, Ross Giglio, Qingyuan Cai, Mathini Vaikunthan, Justin Hong, Abdullah Naqvi, Marina Milea, Hannah Khanshali, Anna Schoonen, Nicholas Hou, Jonathan Guo, Melanie Fraidenburg, Xumin Shen, Seth Malinowski, Keith Ligon, Raul Rabadan, Elham Azizi, José McFaline-Figueroa .  2026.   Mapping kinase-dependent tumor immune adaptation with multiplexed single-cell CRISPR screens.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Luz Zapater, Sara Lewis, Rodrigo Gutierrez, Makiko Yamada, Elias Rodriguez-Fos, Merce Planas-Felix, Daniel Cameron, Phillip Demarest, Anika Nabila, Helen Mueller, Junfei Zhao, Paul Bergin, Casie Reed, Tzippora Chwat-Edelstein, Alex Pagnozzi, Caroline Nava, Emilie Bourel-Ponchel, Patricia Cornejo, Ali Dursun, Köksal Özgül, Halil Akar, Henry Houlden, Huma Cheema, Muhammad Anjum, Giovanni Zifarelli, Peter Bauer, Miriam Essid, Hanene Benrhouma, Meriem Ben Hafsa, Ichraf Kraoua, Carolina Galaz-Montoya, Alex Proekt, Xiaolan Zhao, Nicholas Socci, Matthew Hayes, Yves Bigot, Raul Rabadan, Reza Maroofian, David Torrents, Claudia Kleinman, Michael Kruer, Miklos Toth, Alex Kentsis .  2026.   A transposase-derived gene required for human brain development.. Science advances. 12 (3) :eadv7530 ▶ Go to Pubmed
Xiaolu Zhu, Wenxia Jiang, Wei Wu, Brian Lee, Demis Menolfi, Anthony Tubbs, Olivia Cupo, Eli Malkovskiy, Mattie Nester, Xiaobin Wang, Peter Sims, Chyuan-Sheng Lin V, Lorraine Symington, André Nussenzweig, Brian McStay, Shan Zha .  2026.   Visualization and quantification of rDNA instabilities in mammalian cells and mouse models.. Nucleic acids research. 54 (2) ▶ Go to Pubmed
Michael Zuccaro V, Randee Young, Jiangyuan Hu, Patricia Lanzano, Ekaterina Semenova, Xiaoqi Lin, Alicja Skowronski, Yufeng Shen, Tae Kim, Danny Miller, Noelle Germain, Patrick Sarmiere, Charles Leduc, Wendy Chung .  2026.   Antisense oligonucleotides to KIF1A polymorphisms expand targets and rescue patient-derived neurons in vitro.. Nature communications. 17 (1) :1109 ▶ Go to Pubmed
Arianna Giacobbe, Aleksandar Obradovic, Jinqiu Lu, Soonbum Park, Carlos Pedraz-Valdunciel, Giuseppe Fanelli, Aunika Zheng, Jaime Kim, Maya Dixon, Jung Nam, Florencia Picech, Caroline Laplaca, Renu Virk, Matteo Di Bernardo, Alexander Chui, Juan Arriaga, Stephanie Afari, Francisca de Almeida, Min Zou, Helen Garcia, Brian Robinson, Hongshan Guo, Shyamala Maheswaran, Daniel Haber, David Miyamoto, David Nanus, Scott Tagawa, Tian Zheng, Massimo Loda, Iok Chio, Michael Shen, Paraskevi Giannakakou, Andrea Califano, Peter Sims, Cory Abate-Shen .  2025.   TMPO promotes cellular dissemination and metastasis in circulating tumor cells.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Arianna Giacobbe, Aleksandar Obradovic, Jinqiu Lu, Soonbum Park, Carlos Pedraz-Valdunciel, Giuseppe Fanelli, Aunika Zheng, Jaime Kim, Maya Dixon, Jung Nam, Florencia Picech, Caroline Laplaca, Renu Virk, Matteo Di Bernardo, Alexander Chui, Juan Arriaga, Stephanie Afari, Francisca de Almeida, Min Zou, Helen Garcia, Brian Robinson, Hongshan Guo, Shyamala Maheswaran, Daniel Haber, David Miyamoto, David Nanus, Scott Tagawa, Tian Zheng, Massimo Loda, Iok Chio, Michael Shen, Paraskevi Giannakakou, Andrea Califano, Peter Sims, Cory Abate-Shen .  2025.   TMPO promotes cellular dissemination and metastasis in circulating tumor cells.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Jiayu Su, Yiming Qu, Megan Schertzer, Haochen Yang, Jiahao Jiang, Tenzin Lhakhang, Theodore Nelson, Stella Park, Qiliang Lai, Xi Fu, Seung-Won Choi, David Knowles, Raul Rabadan .  2026.   Mapping isoforms and regulatory mechanisms from spatial transcriptomics data with SPLISOSM.. Nature biotechnology. ▶ Go to Pubmed
Ruocen Song, Reger Mikaeel, Zhongping He, Mehgan Horsnell, Wendy Uylaki, Weimin Meng, Nicola Poplawski, Bernd Wollnik, Yun Li, Jinghua Feng, Hamish Scott, Yufeng Shen, Chen Wang, Rui Yin, Yousong Ding, Xavier Llor, Wendy Chung, Eric Smith, Timothy Price, Joanne Young, Xiao Fan .  2025.   Identification of Novel Susceptibility Genes for Early-Onset Colorectal Cancer Through Germline Rare Variant Burden Testing.. Cancers. 17 (24) ▶ Go to Pubmed
Elya Wygoda, Asher Moshe, Nimrod Serok, Edo Dotan, Noa Ecker, Naiel Jabareen, Omer Israeli, Itsik Pe'er, Tal Pupko .  2026.   Efficient algorithms for simulating sequences along a phylogenetic tree.. Bioinformatics (Oxford, England). 42 (1) ▶ Go to Pubmed
Eduard Reznik, Fereshteh Zandkarimi, Joleen Csuka, Qiulin Zhu, Jenny Jin, Taruna Neelakantan, Jiewen Zheng, Vasiliki Polychronidou, Mark Fongheiser, Ashley Brown, Baiyu Qiu, Megan Rodriguez, Lela DeVine, Prem Subramaniam, Wei Gu, Andrea Califano, Brent Stockwell .  2025.   Lipidomic changes in persister cancer cells drive enhanced ferroptosis sensitivity.. Ferroptosis and oxidative stress. 1 (1) ▶ Go to Pubmed
Tianji Yu, Jimin Yoon, Yimeng Zhu, Angelina Li, Brian Lee, Daniel Moakley, Jing Duan, Qiannian Deng, Fanjia Hou, Mengfang Yan, Vincenzo Gennarino, Ke Zhang, Li Chen, Shan Zha, Chaolin Zhang .  2025.   Primate-specific adaptation of Ku protects transcriptomic integrity by suppressing Alu-mediated alternative splicing.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Montserrat Vallcorba, Nishant Soni, Seung-Won Choi, Kavita Rawat, Tanvi Joshi, Sam Friedman, Alice Buonfiglioli, Angelo Angione, Zhihong Chen, Gonzalo Piñero, Gabrielle Price, Mehek Dedhia, Raina Roche, Emir Radkevich, Anne Bowcock, Deepti Bhatt, Winfried Edelmann, Robert Samstein, Timothy Richardson, Nadejda Tsankova, Alexander Tsankov, Ranjit Bindra, Raul Rabadan, Juan Vasquez, Dolores Hambardzumyan .  2026.   Mismatch repair deficiency drives malignant progression and alters the tumor immune microenvironment in glioblastoma models.. The Journal of clinical investigation. 136 (6) ▶ Go to Pubmed
Shah Alam .  2025.   A neuron type-specific microexon in /ankyrin-G modulates calcium activity and neuronal excitability.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Ziyu Chen, Xinran Tang, Jordan Eichholz, Andrew Mcpherson, Jasmine Thomas, Karan Nagar, Naryan Rustgi, John Christin, Fengshen Kuo, Sizhi Gao, Hui Jiang, Jiaqian Luo, Irina Ostrovnaya, Merve Basar, Eugene Pietzak, Jonathan Coleman, Michael Berger, Elisa de Stanchina, Sohrab Shah, Neeman Mohibullah, David Aggen, Jonathan Rosenberg, Sarat Chandarlapaty, Michael Shen, Hikmat Al-Ahmadie, Gopa Iyer, Kwanghee Kim, David Solit .  2025.   Determinants of sensitivity to HER2-targeted antibody drug conjugates in urothelial cancer.. Nature communications. 17 (1) :919 ▶ Go to Pubmed
Izaak Coleman, Natalya Mametyarova, Andrey Zaznaev, Peiwen Cai, Lisa Yu, Yoli Meydan, Aviya Litman, Ayushi Sharma, Lily He, Amanda Simkhovich, Dwayne Seeram, Heekuk Park, Yael Nobel, Aya Kav, Itsik Pe'er, Anne-Catrin Uhlemann, Tal Korem .  2025.   Comparative metagenomics using pan-metagenomic graphs.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Gurdip Uppal, Guillaume Urtecho, Miles Richardson, Isin Comba, Jeongchan Lee, Thomas Moody, Harris Wang, Georg Gerber .  2025.   MCSPACE: inferring microbiome spatiotemporal dynamics from high-throughput co-localization data.. Microbiome. 14 (1) :28 ▶ Go to Pubmed
Daniel Caron, William Specht, Siddhi Nargund, David Chen, Steven Wells, Jennifer Hwu, Peter Szabo, Peter Sims, Donna Farber .  2026.   Tissue signatures of human macrophages during homeostasis and activation.. Journal of immunology (Baltimore, Md. : 1950). 215 (3) ▶ Go to Pubmed
Shahd ElNaggar, Wenlong Chen, Leanne Prodehl, Thomas Marumo, Muhammed Khan, Christopher Mathew, Paul Ruff, Zhezhen Jin, Alfred Neugut, Anil Rustgi, Anne-Catrin Uhlemann, Tal Korem, Julian Abrams .  2025.   A generalizable cross-continent prediction of esophageal squamous cell carcinoma using the oral microbiome.. bioRxiv : the preprint server for biology. ▶ Go to Pubmed
Alejandro Jiménez-Sánchez, Sitara Persad, Akimasa Hayashi, Shigeaki Umeda, Roshan Sharma, Yubin Xie, Arnav Mehta, Wungki Park, Ignas Masilionis, Tinyi Chu, Feiyang Zhu, Jungeui Hong, Ronan Chaligne, Eileen O'Reilly, Linas Mazutis, Tal Nawy, Itsik Pe'er, Christine Iacobuzio-Donahue, Dana Pe'er .  2026.   Transcriptomic Plasticity Is a Hallmark of Metastatic Pancreatic Cancer.. Cancer research. 86 (7) :1769-1796 ▶ Go to Pubmed
Longfei Gao, Desmond Dickson, Huijuan Feng, Chaolin Zhang, Lei Ding .  2025.   selectively governs hematopoietic stem cell self-renewal by regulating proteostasis.. Science advances. 11 (49) :eaea7451 ▶ Go to Pubmed
Yufeng Shen, Jie Zhou, Jinyi Lang, Lintao Li, Yongjie Li, Chenxi Yang, Shuo Wang, Xiaohua Chen, Siyu Xie, Wei Tang, Shun Lu .  2025.   Towards Clinical Translation: Establishing Optimal Dose and Dose-Rate Parameters for the FLASH Skin-Sparing Effect.. Dose-response : a publication of International Hormesis Society. 23 (4) :15593258251401947 ▶ Go to Pubmed
Alberto Langtry, Raul Rabadan, Lola Alonso, Ioan Filip, Sergio Sabroso-Lasa, Ane Moreno-Oya, Rita Lawlor, Alfredo Carrato, Rafael Alvarez-Gallego, Mar Iglesias, Xavier Molero, Matthias Löhr, Christoph Michalski, José Perea, Michael O'Rorke, Victor Barberà, Adonina Tardón, Antoni Farré, Luís Muñoz-Bellvís, Tatjana Crnogorac-Jurcevic, Enrique Domínguez-Muñoz, Thomas Gress, William Greenhalf, Linda Sharp, Joaquim Balsells, Eithne Costello, Jörg Kleeff, Bo Kong, Josefina Mora, Damian O'Driscoll, Aldo Scarpa, Weimin Ye, Francisco Real, Evangelina de Maturana, Núria Malats, PanGenEU Investigators .  2025.   Deciphering the role of complement system genes in pancreatic cancer susceptibility and prognosis.. Nature communications. 16 (1) :10769 ▶ Go to Pubmed
George Austin, Itsik Pe'er, Tal Korem .  2025.   Distributional bias compromises leave-one-out cross-validation.. Science advances. 11 (48) :eadx6976 ▶ Go to Pubmed
Jia Li, Alessandro Vasciaveo, Dimitris Karagiannis, Zhen Sun, Kristjan Gretarsson, Xiao Chen, Ouathek Ouerfelli, Fabio Socciarelli, Ziv Frankenstein, Hanyang Dong, Min Zou, Wei Yuan, Guangli Yang, Gabriel Aizenman, Tania Pannellini, Xinjing Xu, Himisha Beltran, Yu Chen, Kevin Gardner, Brian Robinson, Johann de Bono, Or Gozani, Cory Abate-Shen, Mark Rubin, Massimo Loda, Charles Sawyers, Andrea Califano, Chao Lu, Michael Shen .  2026.   NSD2 targeting reverses plasticity and drug resistance in prostate cancer.. Nature. 649 (8095) :216-226 ▶ Go to Pubmed
Jia Li, Alessandro Vasciaveo, Dimitris Karagiannis, Zhen Sun, Kristjan Gretarsson, Xiao Chen, Ouathek Ouerfelli, Fabio Socciarelli, Ziv Frankenstein, Hanyang Dong, Min Zou, Wei Yuan, Guangli Yang, Gabriel Aizenman, Tania Pannellini, Xinjing Xu, Himisha Beltran, Yu Chen, Kevin Gardner, Brian Robinson, Johann de Bono, Or Gozani, Cory Abate-Shen, Mark Rubin, Massimo Loda, Charles Sawyers, Andrea Califano, Chao Lu, Michael Shen .  2026.   NSD2 targeting reverses plasticity and drug resistance in prostate cancer.. Nature. 649 (8095) :216-226 ▶ Go to Pubmed
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