Molecular and Genetic Properties of Tumors Associated with Local Immune Cytolytic Activity
Rooney, Michael S., Shukla, Sachet A., Wu, Catherine J., Getz, Gad, Hacohen, Nir
Published in Cell (15.01.2015)
Published in Cell (15.01.2015)
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Evolution and Impact of Subclonal Mutations in Chronic Lymphocytic Leukemia
Landau, Dan A., Carter, Scott L., Stojanov, Petar, McKenna, Aaron, Stevenson, Kristen, Lawrence, Michael S., Sougnez, Carrie, Stewart, Chip, Sivachenko, Andrey, Wang, Lili, Wan, Youzhong, Zhang, Wandi, Shukla, Sachet A., Vartanov, Alexander, Fernandes, Stacey M., Saksena, Gordon, Cibulskis, Kristian, Tesar, Bethany, Gabriel, Stacey, Hacohen, Nir, Meyerson, Matthew, Lander, Eric S., Neuberg, Donna, Brown, Jennifer R., Getz, Gad, Wu, Catherine J.
Published in Cell (14.02.2013)
Published in Cell (14.02.2013)
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Interplay of somatic alterations and immune infiltration modulates response to PD-1 blockade in advanced clear cell renal cell carcinoma
Braun, David A., Hou, Yue, Bakouny, Ziad, Ficial, Miriam, Sant’ Angelo, Miriam, Forman, Juliet, Ross-Macdonald, Petra, Berger, Ashton C., Jegede, Opeyemi A., Elagina, Liudmilla, Steinharter, John, Sun, Maxine, Wind-Rotolo, Megan, Pignon, Jean-Christophe, Cherniack, Andrew D., Lichtenstein, Lee, Neuberg, Donna, Catalano, Paul, Freeman, Gordon J., Sharpe, Arlene H., McDermott, David F., Van Allen, Eliezer M., Signoretti, Sabina, Wu, Catherine J., Shukla, Sachet A., Choueiri, Toni K.
Published in Nature medicine (01.06.2020)
Published in Nature medicine (01.06.2020)
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Resistance to checkpoint blockade therapy through inactivation of antigen presentation
Sade-Feldman, Moshe, Jiao, Yunxin J., Chen, Jonathan H., Rooney, Michael S., Barzily-Rokni, Michal, Eliane, Jean-Pierre, Bjorgaard, Stacey L., Hammond, Marc R., Vitzthum, Hans, Blackmon, Shauna M., Frederick, Dennie T., Hazar-Rethinam, Mehlika, Nadres, Brandon A., Van Seventer, Emily E., Shukla, Sachet A., Yizhak, Keren, Ray, John P., Rosebrock, Daniel, Livitz, Dimitri, Adalsteinsson, Viktor, Getz, Gad, Duncan, Lyn M., Li, Bo, Corcoran, Ryan B., Lawrence, Donald P., Stemmer-Rachamimov, Anat, Boland, Genevieve M., Landau, Dan A., Flaherty, Keith T., Sullivan, Ryan J., Hacohen, Nir
Published in Nature communications (26.10.2017)
Published in Nature communications (26.10.2017)
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Genomic Correlates of Immune-Cell Infiltrates in Colorectal Carcinoma
Giannakis, Marios, Mu, Xinmeng Jasmine, Shukla, Sachet A., Qian, Zhi Rong, Cohen, Ofir, Nishihara, Reiko, Bahl, Samira, Cao, Yin, Amin-Mansour, Ali, Yamauchi, Mai, Sukawa, Yasutaka, Stewart, Chip, Rosenberg, Mara, Mima, Kosuke, Inamura, Kentaro, Nosho, Katsuhiko, Nowak, Jonathan A., Lawrence, Michael S., Giovannucci, Edward L., Chan, Andrew T., Ng, Kimmie, Meyerhardt, Jeffrey A., Van Allen, Eliezer M., Getz, Gad, Gabriel, Stacey B., Lander, Eric S., Wu, Catherine J., Fuchs, Charles S., Ogino, Shuji, Garraway, Levi A.
Published in Cell reports (Cambridge) (26.04.2016)
Published in Cell reports (Cambridge) (26.04.2016)
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Genomic correlates of response to CTLA-4 blockade in metastatic melanoma
Van Allen, Eliezer M., Miao, Diana, Schilling, Bastian, Shukla, Sachet A., Blank, Christian, Zimmer, Lisa, Sucker, Antje, Hillen, Uwe, Foppen, Marnix H. Geukes, Goldinger, Simone M., Utikal, Jochen, Hassel, Jessica C., Weide, Benjamin, Kaehler, Katharina C., Loquai, Carmen, Mohr, Peter, Gutzmer, Ralf, Dummer, Reinhard, Gabriel, Stacey, Wu, Catherine J., Schadendorf, Dirk, Garraway, Levi A.
Published in Science (American Association for the Advancement of Science) (09.10.2015)
Published in Science (American Association for the Advancement of Science) (09.10.2015)
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Distinct patterns of somatic genome alterations in lung adenocarcinomas and squamous cell carcinomas
Campbell, Joshua D, Alexandrov, Anton, Kim, Jaegil, Wala, Jeremiah, Berger, Alice H, Pedamallu, Chandra Sekhar, Shukla, Sachet A, Guo, Guangwu, Brooks, Angela N, Murray, Bradley A, Imielinski, Marcin, Hu, Xin, Ling, Shiyun, Akbani, Rehan, Rosenberg, Mara, Cibulskis, Carrie, Ramachandran, Aruna, Collisson, Eric A, Kwiatkowski, David J, Lawrence, Michael S, Weinstein, John N, Verhaak, Roel G W, Wu, Catherine J, Hammerman, Peter S, Cherniack, Andrew D, Getz, Gad, Artyomov, Maxim N, Schreiber, Robert, Govindan, Ramaswamy, Meyerson, Matthew
Published in Nature genetics (01.06.2016)
Published in Nature genetics (01.06.2016)
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Comprehensive analysis of cancer-associated somatic mutations in class I HLA genes
Shukla, Sachet A, Rooney, Michael S, Rajasagi, Mohini, Tiao, Grace, Dixon, Philip M, Lawrence, Michael S, Stevens, Jonathan, Lane, William J, Dellagatta, Jamie L, Steelman, Scott, Sougnez, Carrie, Cibulskis, Kristian, Kiezun, Adam, Hacohen, Nir, Brusic, Vladimir, Wu, Catherine J, Getz, Gad
Published in Nature biotechnology (01.11.2015)
Published in Nature biotechnology (01.11.2015)
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Metabolomic adaptations and correlates of survival to immune checkpoint blockade
Li, Haoxin, Bullock, Kevin, Gurjao, Carino, Braun, David, Shukla, Sachet A., Bossé, Dominick, Lalani, Aly-Khan A., Gopal, Shuba, Jin, Chelsea, Horak, Christine, Wind-Rotolo, Megan, Signoretti, Sabina, McDermott, David F., Freeman, Gordon J., Van Allen, Eliezer M., Schreiber, Stuart L., Stephen Hodi, F., Sellers, William R., Garraway, Levi A., Clish, Clary B., Choueiri, Toni K., Giannakis, Marios
Published in Nature communications (25.09.2019)
Published in Nature communications (25.09.2019)
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Clinical Validation of PBRM1 Alterations as a Marker of Immune Checkpoint Inhibitor Response in Renal Cell Carcinoma
Braun, David A, Ishii, Yuko, Walsh, Alice M, Van Allen, Eliezer M, Wu, Catherine J, Shukla, Sachet A, Choueiri, Toni K
Published in JAMA oncology (01.11.2019)
Published in JAMA oncology (01.11.2019)
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Systematic identification of personal tumor-specific neoantigens in chronic lymphocytic leukemia
Rajasagi, Mohini, Shukla, Sachet A., Fritsch, Edward F., Keskin, Derin B., DeLuca, David, Carmona, Ellese, Zhang, Wandi, Sougnez, Carrie, Cibulskis, Kristian, Sidney, John, Stevenson, Kristen, Ritz, Jerome, Neuberg, Donna, Brusic, Vladimir, Gabriel, Stacey, Lander, Eric S., Getz, Gad, Hacohen, Nir, Wu, Catherine J.
Published in Blood (17.07.2014)
Published in Blood (17.07.2014)
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Telomere dysfunction induces metabolic and mitochondrial compromise
Sahin, Ergün, Colla, Simona, Liesa, Marc, Moslehi, Javid, Müller, Florian L., Guo, Mira, Cooper, Marcus, Kotton, Darrell, Fabian, Attila J., Walkey, Carl, Maser, Richard S., Tonon, Giovanni, Foerster, Friedrich, Xiong, Robert, Wang, Y. Alan, Shukla, Sachet A., Jaskelioff, Mariela, Martin, Eric S., Heffernan, Timothy P., Protopopov, Alexei, Ivanova, Elena, Mahoney, John E., Kost-Alimova, Maria, Perry, Samuel R., Bronson, Roderick, Liao, Ronglih, Mulligan, Richard, Shirihai, Orian S., Chin, Lynda, DePinho, Ronald A.
Published in Nature (London) (17.02.2011)
Published in Nature (London) (17.02.2011)
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Germline variants associated with toxicity to immune checkpoint blockade
Groha, Stefan, Alaiwi, Sarah Abou, Xu, Wenxin, Naranbhai, Vivek, Nassar, Amin H., Bakouny, Ziad, El Zarif, Talal, Saliby, Renee Maria, Wan, Guihong, Rajeh, Ahmad, Adib, Elio, Nuzzo, Pier V., Schmidt, Andrew L., Labaki, Chris, Ricciuti, Biagio, Alessi, Joao Victor, Braun, David A., Shukla, Sachet A., Keenan, Tanya E., Van Allen, Eliezer, Awad, Mark M., Manos, Michael, Rahma, Osama, Zubiri, Leyre, Villani, Alexandra-Chloe, Fairfax, Benjamin, Hammer, Christian, Khan, Zia, Reynolds, Kerry, Semenov, Yevgeniy, Schrag, Deborah, Kehl, Kenneth L., Freedman, Matthew L., Choueiri, Toni K., Gusev, Alexander
Published in Nature medicine (01.12.2022)
Published in Nature medicine (01.12.2022)
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The genomic landscape of pediatric Ewing sarcoma
Crompton, Brian D, Stewart, Chip, Taylor-Weiner, Amaro, Alexe, Gabriela, Kurek, Kyle C, Calicchio, Monica L, Kiezun, Adam, Carter, Scott L, Shukla, Sachet A, Mehta, Swapnil S, Thorner, Aaron R, de Torres, Carmen, Lavarino, Cinzia, Suñol, Mariona, McKenna, Aaron, Sivachenko, Andrey, Cibulskis, Kristian, Lawrence, Michael S, Stojanov, Petar, Rosenberg, Mara, Ambrogio, Lauren, Auclair, Daniel, Seepo, Sara, Blumenstiel, Brendan, DeFelice, Matthew, Imaz-Rosshandler, Ivan, Schwarz-Cruz Y Celis, Angela, Rivera, Miguel N, Rodriguez-Galindo, Carlos, Fleming, Mark D, Golub, Todd R, Getz, Gad, Mora, Jaume, Stegmaier, Kimberly
Published in Cancer discovery (01.11.2014)
Published in Cancer discovery (01.11.2014)
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Genomic Correlates of Immune-Cell Infiltrates in Colorectal Carcinoma
Giannakis, Marios, Mu, Xinmeng Jasmine, Shukla, Sachet A., Qian, Zhi Rong, Cohen, Ofir, Nishihara, Reiko, Bahl, Samira, Cao, Yin, Amin-Mansour, Ali, Yamauchi, Mai, Sukawa, Yasutaka, Stewart, Chip, Rosenberg, Mara, Mima, Kosuke, Inamura, Kentaro, Nosho, Katsuhiko, Nowak, Jonathan A., Lawrence, Michael S., Giovannucci, Edward L., Chan, Andrew T., Ng, Kimmie, Meyerhardt, Jeffrey A., Van Allen, Eliezer M., Getz, Gad, Gabriel, Stacey B., Lander, Eric S., Wu, Catherine J., Fuchs, Charles S., Ogino, Shuji, Garraway, Levi A.
Published in Cell reports (Cambridge) (18.10.2016)
Published in Cell reports (Cambridge) (18.10.2016)
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irRECIST for the Evaluation of Candidate Biomarkers of Response to Nivolumab in Metastatic Clear Cell Renal Cell Carcinoma: Analysis of a Phase II Prospective Clinical Trial
Pignon, Jean-Christophe, Jegede, Opeyemi, Shukla, Sachet A, Braun, David A, Horak, Christine E, Wind-Rotolo, Megan, Ishii, Yuko, Catalano, Paul J, Grosha, Jonian, Flaifel, Abdallah, Novak, Jesse S, Mahoney, Kathleen M, Freeman, Gordon J, Sharpe, Arlene H, Hodi, F Stephen, Motzer, Robert J, Choueiri, Toni K, Wu, Catherine J, Atkins, Michael B, McDermott, David F, Signoretti, Sabina
Published in Clinical cancer research (01.04.2019)
Published in Clinical cancer research (01.04.2019)
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Genomic Alterations during the In Situ to Invasive Ductal Breast Carcinoma Transition Shaped by the Immune System
Trinh, Anne, Gil Del Alcazar, Carlos R, Shukla, Sachet A, Chin, Koei, Chang, Young Hwan, Thibault, Guillaume, Eng, Jennifer, Jovanović, Bojana, Aldaz, C Marcelo, Park, So Yeon, Jeong, Joon, Wu, Catherine, Gray, Joe, Polyak, Kornelia
Published in Molecular cancer research (01.04.2021)
Published in Molecular cancer research (01.04.2021)
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STAR RNA-binding protein Quaking suppresses cancer via stabilization of specific miRNA
Chen, An-Jou, Paik, Ji-Hye, Zhang, Hailei, Shukla, Sachet A, Mortensen, Richard, Hu, Jian, Ying, Haoqiang, Hu, Baoli, Hurt, Jessica, Farny, Natalie, Dong, Caroline, Xiao, Yonghong, Wang, Y Alan, Silver, Pamela A, Chin, Lynda, Vasudevan, Shobha, Depinho, Ronald A
Published in Genes & development (01.07.2012)
Published in Genes & development (01.07.2012)
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Mammalian SWI/SNF Complex Genomic Alterations and Immune Checkpoint Blockade in Solid Tumors
Abou Alaiwi, Sarah, Nassar, Amin H, Xie, Wanling, Bakouny, Ziad, Berchuck, Jacob E, Braun, David A, Baca, Sylvan C, Nuzzo, Pier Vitale, Flippot, Ronan, Mouhieddine, Tarek H, Spurr, Liam F, Li, Yvonne Y, Li, Taiwen, Flaifel, Abdallah, Steinharter, John A, Margolis, Claire A, Vokes, Natalie I, Du, Heng, Shukla, Sachet A, Cherniack, Andrew D, Sonpavde, Guru, Haddad, Robert I, Awad, Mark M, Giannakis, Marios, Hodi, F Stephen, Liu, X Shirley, Signoretti, Sabina, Kadoch, Cigall, Freedman, Matthew L, Kwiatkowski, David J, Van Allen, Eliezer M, Choueiri, Toni K
Published in Cancer immunology research (01.08.2020)
Published in Cancer immunology research (01.08.2020)
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TIME (Tumor Immunity in the MicroEnvironment) classification based on tumor CD274 (PD-L1) expression status and tumor-infiltrating lymphocytes in colorectal carcinomas
Hamada, Tsuyoshi, Soong, Thing Rinda, Masugi, Yohei, Kosumi, Keisuke, Nowak, Jonathan A., da Silva, Annacarolina, Mu, Xinmeng Jasmine, Twombly, Tyler S., Koh, Hideo, Yang, Juhong, Song, Mingyang, Liu, Li, Gu, Mancang, Shi, Yan, Nosho, Katsuhiko, Morikawa, Teppei, Inamura, Kentaro, Shukla, Sachet A., Wu, Catherine J., Garraway, Levi A., Zhang, Xuehong, Wu, Kana, Meyerhardt, Jeffrey A., Chan, Andrew T., Glickman, Jonathan N., Rodig, Scott J., Freeman, Gordon J., Fuchs, Charles S., Nishihara, Reiko, Giannakis, Marios, Ogino, Shuji
Published in Oncoimmunology (03.07.2018)
Published in Oncoimmunology (03.07.2018)
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