Not logged in Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics Avraham-Davidi, Inbal; Mages, Simon; Klughammer, Johanna; Moriel, Noa; Imada, Shinya; Hofree, Matan; Murray, Evan; Chen, Jonathan; Pelka, Karin; Mehta, Arnav; Boland, Genevieve M.; Delorey, Toni; Caplan, Leah; Dionne, Danielle; Strasser, Robert; Lalakova, Jana; Niesnerova, Anezka; Xu, Hao; Rouault, Morgane; Tirosh, Itay; Nir, Hacohen; Chen, Fei; Yilmaz, Omer; Roper, Jatin; Rozenblatt-Rosen, Orit; Nitzan, Mor; Regev, Aviv Share Save
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Single-cell transcriptomic analyses reveal distinct immune cell contributions to epithelial barrier dysfunction in checkpoint inhibitor colitis Thomas, Molly Fisher; Slowikowski, Kamil; Manakongtreecheep, Kasidet; Sen, Pritha; Samanta, Nandini; Tantivit, Jessica; Nasrallah, Mazen; Zubiri, Leyre; Smith, Neal P.; Tirard, Alice; Ramesh, Swetha; Arnold, Benjamin Y.; Nieman, Linda T.; Chen, Jonathan H.; Eisenhaure, Thomas; Pelka, Karin; Song, Yuhui; Xu, Katherine H.; Jorgji, Vjola; Pinto, Christopher J.; Sharova, Tatyana; Glasser, Rachel; Chan, Puiyee; Sullivan, Ryan J.; Khalili, Hamed; Juric, Dejan; Boland, Genevieve M.; Dougan, Michael; Hacohen, Nir; Li, Bo; Reynolds, Kerry L.; Villani, Alexandra-Chloe Share Save
scRNAseq and TCR repertoire analysis identifies immune correlates of response to combined BRAF/MEK/PD1 inhibition in a phase 2 trial Yao, Hongcheng; Jorgji, Vjola; Tang, Alexander L.; Lieb, David; Chao, Sherry X.; Stein, Daniel J.; Spurrell, Maxwell; Elmelech, Liad; Tian, Jun; Sade-Feldman, Moshe; Pelka, Karin; Corcoran, Ryan B.; Hacohen, Nir; Korsunsky, Ilya; Chen, Jonathan Share Save
Spatial organization and cellular composition of immunity hubs in human colorectal cancer Palshikar, Mukta G.; Spurrell, Maxwell; Demaray, Jack; Chen, Han; Engels, Scott; Madhu, Roopa; Parikh, Milan; Gazmora, Izabella; Mehta, Arnav; Fernandez, Nicolas; Price, Colles; He, Jiang; Cohen, Sonia; Pelka, Karin; Hacohen, Nir; Chen, Jonathan; Korsunsky, Ilya Share Save
Human lung cancer harbors spatially organized stem-immunity hubs associated with response to immunotherapy Chen, Jonathan H.; Nieman, Linda T.; Spurrell, Maxwell; Jorgji, Vjola; Elmelech, Liad; Richieri, Peter; Xu, Katherine H.; Madhu, Roopa; Parikh, Milan; Zamora, Izabella; Mehta, Arnav; Nabel, Christopher S.; Freeman, Samuel S.; Pirl, Joshua D.; Lu, Chenyue; Meador, Catherine B.; Barth, Jaimie L.; Sakhi, Mustafa; Tang, Alexander L.; Sarkizova, Siranush; Price, Colles; Fernandez, Nicolas F.; Emanuel, George; He, Jiang; Van Raay, Katrina; Reeves, Jason W.; Yizhak, Keren; Hofree, Matan; Shih, Angela; Sade-Feldman, Moshe; Boland, Genevieve M.; Pelka, Karin; Aryee, Martin J.; Mino-Kenudson, Mari; Gainor, Justin F.; Korsunsky, Ilya; Hacohen, Nir Share Save
Single-cell atlas of the liver myeloid compartment before and after cure of chronic viral hepatitis Cui, Ang; Li, Bo; Wallace, Michael S.; Gonye, Anna L. K.; Oetheimer, Christopher; Patel, Hailey; Tonnerre, Pierre; Holmes, Jacinta A.; Lieb, David; Yao, Brianna S.; Ma, Aileen; Roberts, Kela; Damasio, Marcos; Chen, Jonathan H.; Piou, Daphnee; Carlton-Smith, Charles; Brown, Joelle; Mylvaganam, Ravi; Fung, Jeremy Man Hon; Sade-Feldman, Moshe; Aneja, Jasneet; Gustafson, Jenna; Epstein, Eliana T.; Salloum, Shadi; Brisac, Cynthia; Thabet, Ashraf; Kim, Arthur Y.; Lauer, Georg M.; Hacohen, Nir; Chung, Raymond T.; Alatrakchi, Nadia Share Save
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Combined PD-1, BRAF and MEK inhibition in BRAFV600E colorectal cancer: a phase 2 trial Tian, Jun; Chen, Jonathan H. H.; Chao, Sherry X. X.; Pelka, Karin; Giannakis, Marios; Hess, Julian; Burke, Kelly; Jorgji, Vjola; Sindurakar, Princy; Braverman, Jonathan; Mehta, Arnav; Oka, Tomonori; Huang, Mei; Lieb, David; Spurrell, Maxwell; Allen, Jill N. N.; Abrams, Thomas A. A.; Clark, Jeffrey W. W.; Enzinger, Andrea C. C.; Enzinger, Peter C. C.; Klempner, Samuel J. J.; McCleary, Nadine J. J.; Meyerhardt, Jeffrey A. A.; Ryan, David P. P.; Yurgelun, Matthew B. B.; Kanter, Katie; Van Seventer, Emily E. E.; Baiev, Islam; Chi, Gary; Jarnagin, Joy; Bradford, William B. B.; Wong, Edmond; Michel, Alexa G. G.; Fetter, Isobel J. J.; Siravegna, Giulia; Gemma, Angelo J. J.; Sharpe, Arlene; Demehri, Shadmehr; Leary, Rebecca; Campbell, Catarina D. D.; Yilmaz, Omer; Getz, Gad A. A.; Parikh, Aparna R. R.; Hacohen, Nir; Corcoran, Ryan B. B. Share Save
Single-nucleus and spatial transcriptome profiling of pancreatic cancer identifies multicellular dynamics associated with neoadjuvant treatment Hwang, William L.; Jagadeesh, Karthik A.; Guo, Jimmy A.; Hoffman, Hannah, I; Yadollahpour, Payman; Reeves, Jason W.; Mohan, Rahul; Drokhlyansky, Eugene; Van Wittenberghe, Nicholas; Ashenberg, Orr; Farhi, Samouil L.; Schapiro, Denis; Divakar, Prajan; Miller, Eric; Zollinger, Daniel R.; Eng, George; Schenkel, Jason M.; Su, Jennifer; Shiau, Carina; Yu, Patrick; Freed-Pastor, William A.; Abbondanza, Domenic; Mehta, Arnav; Gould, Joshua; Lambden, Conner; Porter, Caroline B. M.; Tsankov, Alexander; Dionne, Danielle; Waldman, Julia; Cuoco, Michael S.; Lan Nguyen; Delorey, Toni; Phillips, Devan; Barth, Jaimie L.; Kem, Marina; Rodrigues, Clifton; Ciprani, Debora; Roldan, Jorge; Zelga, Piotr; Jorgji, Vjola; Chen, Jonathan H.; Ely, Zackery; Zhao, Daniel; Fuhrman, Kit; Fropf, Robin; Beechem, Joseph M.; Loeffler, Jay S.; Ryan, David P.; Weekes, Colin D.; Ferrone, Cristina R.; Qadan, Motaz; Aryee, Martin J.; Jain, Rakesh K.; Neuberg, Donna S.; Wo, Jennifer Y.; Hong, Theodore S.; Xavier, Ramnik; Aguirre, Andrew J.; Rozenblatt-Rosen, Orit; Mino-Kenudson, Mari; Fernandez-del Castillo, Carlos; Liss, Andrew S.; Ting, David T.; Jacks, Tyler; Regev, Aviv Share Save
The PEARL trial: Pre-operative pembrolizumab with radiation therapy in early stage triple negative breast cancer McArthur, Heather L.; Shiao, Stephen; Karlan, Scott; Basho, Reva; Amersi, Farin; Burnison, Michele; Mirhadi, Amin; Chung, Alice; Chung, Cathie T.; Dang, Catherine; Richardson, Heather; Giuliano, Armando E.; Kapoor, Nimmi; Larkin, Brigid; Godinez, Hector; Dunn, Samantha A.; Khameneh, Negin Habibi; Knott, Simon; McAndrew, Philomena; Mita, Monica; Park, Dorothy J.; Abaya, Christina; Chen, Jonathan H.; Ly, Amy; Bossuyt, Veerle; Ho, Alice Share Save
Combined tumor and immune signals from genomes or transcriptomes predict outcomes of checkpoint inhibition in melanoma Freeman, Samuel S.; Sade-Feldman, Moshe; Kim, Jaegil; Stewart, Chip; Gonye, Anna L. K.; Ravi, Arvind; Arniella, Monica B.; Gushterova, Irena; LaSalle, Thomas J.; Blaum, Emily M.; Yizhak, Keren; Frederick, Dennie T.; Sharova, Tatyana; Leshchiner, Ignaty; Elagina, Liudmila; Spiro, Oliver G.; Livitz, Dimitri; Rosebrock, Daniel; Aguet, Francois; Carrot-Zhang, Jian; Ha, Gavin; Lin, Ziao; Chen, Jonathan H.; Barzily-Rokni, Michal; Hammond, Marc R.; von Eckstaedt, Hans C. Vitzthum; Blackmon, Shauna M.; Jiao, Yunxin J.; Gabriel, Stacey; Lawrence, Donald P.; Duncan, Lyn M.; Stemmer-Rachamimov, Anat O.; Wargo, Jennifer A.; Flaherty, Keith T.; Sullivan, Ryan J.; Boland, Genevieve M.; Meyerson, Matthew; Getz, Gad; Hacohen, Nir Share Save
SPATIALLY ORGANIZED MULTICELLULAR IMMUNE HUBS IN MMRD AND MMRP COLORECTAL CANCER Chen, Jonathan; Pelka, Karin; Hofree, Matan; Giannakis, Marios; Boland, Genevieve; Aguirre, Andrew; Anderson, Ana; Rozenblatt-Rosen, Orit; Regev, Aviv; Hacohen, Nir Share Save
Temporal and spatial heterogeneity of host response to SARS-CoV-2 pulmonary infection Desai, Niyati; Neyaz, Azfar; Szabolcs, Annamaria; Shih, Angela R.; Chen, Jonathan H.; Thapar, Vishal; Nieman, Linda T.; Solovyov, Alexander; Mehta, Arnav; Lieb, David J.; Kulkarni, Anupriya S.; Jaicks, Christopher; Xu, Katherine H.; Raabe, Michael J.; Pinto, Christopher J.; Juric, Dejan; Chebib, Ivan; Colvin, Robert B.; Kim, Arthur Y.; Monroe, Robert; Warren, Sarah E.; Danaher, Patrick; Reeves, Jason W.; Gong, Jingjing; Rueckert, Erroll H.; Greenbaum, Benjamin D.; Hacohen, Nir; Lagana, Stephen M.; Rivera, Miguel N.; Sholl, Lynette M.; Stone, James R.; Ting, David T.; Deshpande, Vikram Share Save
Optimizing Radiation Therapy to Boost Systemic Immune Responses in Breast Cancer: A Critical Review for Breast Radiation Oncologists Ho, Alice Y.; Wright, Jean L.; Blitzblau, Rachel C.; Mutter, Robert W.; Duda, Dan G.; Norton, Larry; Bardia, Aditya; Spring, Laura; Isakoff, Steven J.; Chen, Jonathan H.; Grassberger, Clemens; Bellon, Jennifer R.; Beriwal, Sushil; Khan, Atif J.; Speers, Corey; Dunn, Samantha A.; Thompson, Alastair; Santa-Maria, Cesar A.; Krop, Ian E.; Mittendorf, Elizabeth; King, Tari A.; Gupta, Gaorav P. Share Save
Combined signals from tumor and immune cells predict outcomes of checkpoint inhibition in melanoma Freeman, Samuel S.; Sade-Feldman, Moshe; Kim, Jaegil; Stewart, Chip; Ravi, Arvind; Arniella, Monica; Yizhak, Keren; Leshchiner, Ignaty; Elagina, Liudmila; Spiro, Oliver; Livitz, Dimitri; Rosebrock, Daniel; Aguet, Francois; Carrot-Zhang, Jian; Gonye, Anna; Ha, Gavin; Lin, Ziao; Chen, Jonathan H.; Frederick, Dennie T.; Barzily-Rokni, Michal; Hammond, Marc R.; Vitzthum, Hans; Blackmon, Shauna M.; Jiao, Yunxin J.; Lawrence, Donald P.; Duncan, Lyn M.; Stemmer-Rachamimov, Anat; Wargo, Jennifer A.; Flaherty, Keith T.; Boland, Genevieve M.; Sullivan, Ryan J.; Meyerson, Matthew; Getz, Gad; Hacohen, Nir Share Save
Immune checkpoint inhibitor-associated celiac disease Badran, Yousef; Shih, Angela; Leet, Donna; Mooradian, Meghan J.; Coromilas, Alexandra; Chen, Jonathan; Kem, Marina; Zheng, Hui; Borowsky, Jennifer; Misdraji, Joseph; Mino-Kenudson, Mari; Dougan, Michael Share Save
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