A major chromatin regulator determines resistance of tumor cells to T cell-mediated killing von Pan, Deng, Kobayashi, Aya, Jiang, Peng, Ferrari de Andrade, Lucas, Tay, Rong En, Luoma, Adrienne M, Tsoucas, Daphne, Qiu, Xintao, Lim, Klothilda, Rao, Prakash, Long, Henry W, Yuan, Guo-Cheng, Doench, John, Brown, Myles, Liu, X Shirley, Wucherpfennig, Kai W

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Integrative analyses of single-cell transcriptome and regulome using MAESTRO von Wang, Chenfei, Sun, Dongqing, Huang, Xin, Wan, Changxin, Li, Ziyi, Han, Ya, Qin, Qian, Fan, Jingyu, Qiu, Xintao, Xie, Yingtian, Meyer, Clifford A, Brown, Myles, Tang, Ming, Long, Henry, Liu, Tao, Liu, X Shirley

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A Somatically Acquired Enhancer of the Androgen Receptor Is a Noncoding Driver in Advanced Prostate Cancer von Takeda, David Y., Spisák, Sándor, Seo, Ji-Heui, Bell, Connor, O’Connor, Edward, Korthauer, Keegan, Ribli, Dezső, Csabai, István, Solymosi, Norbert, Szállási, Zoltán, Stillman, David R., Cejas, Paloma, Qiu, Xintao, Long, Henry W., Tisza, Viktória, Nuzzo, Pier Vitale, Rohanizadegan, Mersedeh, Pomerantz, Mark M., Hahn, William C., Freedman, Matthew L.

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VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis von Cornwell, MacIntosh, Vangala, Mahesh, Taing, Len, Herbert, Zachary, Köster, Johannes, Li, Bo, Sun, Hanfei, Li, Taiwen, Zhang, Jian, Qiu, Xintao, Pun, Matthew, Jeselsohn, Rinath, Brown, Myles, Liu, X Shirley, Long, Henry W

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Allele-Specific Chromatin Recruitment and Therapeutic Vulnerabilities of ESR1 Activating Mutations von Jeselsohn, Rinath, Bergholz, Johann S., Pun, Matthew, Cornwell, MacIntosh, Liu, Weihan, Nardone, Agostina, Xiao, Tengfei, Li, Wei, Qiu, Xintao, Buchwalter, Gilles, Feiglin, Ariel, Abell-Hart, Kayley, Fei, Teng, Rao, Prakash, Long, Henry, Kwiatkowski, Nicholas, Zhang, Tinghu, Gray, Nathanael, Melchers, Diane, Houtman, Rene, Liu, X. Shirley, Cohen, Ofir, Wagle, Nikhil, Winer, Eric P., Zhao, Jean, Brown, Myles

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A Novel Mechanism Driving Poor-Prognosis Prostate Cancer: Overexpression of the DNA Repair Gene, Ribonucleotide Reductase Small Subunit M2 (RRM2) von Mazzu, Ying Z, Armenia, Joshua, Chakraborty, Goutam, Yoshikawa, Yuki, Coggins, Si'Ana A, Nandakumar, Subhiksha, Gerke, Travis A, Pomerantz, Mark M, Qiu, Xintao, Zhao, Huiyong, Atiq, Mohammad, Khan, Nabeela, Komura, Kazumasa, Lee, Gwo-Shu Mary, Fine, Samson W, Bell, Connor, O'Connor, Edward, Long, Henry W, Freedman, Matthew L, Kim, Baek, Kantoff, Philip W

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JAK-STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States von Stevens, Laura E, Peluffo, Guillermo, Qiu, Xintao, Temko, Daniel, Fassl, Anne, Li, Zheqi, Trinh, Anne, Seehawer, Marco, Jovanović, Bojana, Alečković, Maša, Wilde, Callahan M, Geck, Renee C, Shu, Shaokun, Kingston, Natalie L, Harper, Nicholas W, Almendro, Vanessa, Pyke, Alanna L, Egri, Shawn B, Papanastasiou, Malvina, Clement, Kendell, Zhou, Ningxuan, Walker, Sarah, Salas, Jacqueline, Park, So Yeon, Frank, David A, Meissner, Alexander, Jaffe, Jacob D, Sicinski, Piotr, Toker, Alex, Michor, Franziska, Long, Henry W, Overmoyer, Beth A, Polyak, Kornelia

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Reprogramming of the esophageal squamous carcinoma epigenome by SOX2 promotes ADAR1 dependence von Wu, Zhong, Zhou, Jin, Zhang, Xiaoyang, Zhang, Zhouwei, Xie, Yingtian, Liu, Jie bin, Ho, Zandra V., Panda, Arpit, Qiu, Xintao, Cejas, Paloma, Cañadas, Israel, Akarca, Fahire Goknur, McFarland, James M., Nagaraja, Ankur K., Goss, Louisa B., Kesten, Nikolas, Si, Longlong, Lim, Klothilda, Liu, Yanli, Zhang, Yanxi, Baek, Ji Yeon, Liu, Yang, Patil, Deepa T., Katz, Jonathan P., Hai, Josephine, Bao, Chunyang, Stachler, Matthew, Qi, Jun, Ishizuka, Jeffrey J., Nakagawa, Hiroshi, Rustgi, Anil K., Wong, Kwok-Kin, Meyerson, Matthew, Barbie, David A., Brown, Myles, Long, Henry, Bass, Adam J.

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FGFR-inhibitor-mediated dismissal of SWI/SNF complexes from YAP-dependent enhancers induces adaptive therapeutic resistance von Li, Yihao, Qiu, Xintao, Wang, Xiaoqing, Liu, Hui, Geck, Renee C., Tewari, Alok K., Xiao, Tengfei, Font-Tello, Alba, Lim, Klothilda, Jones, Kristen L., Morrow, Murry, Vadhi, Raga, Kao, Pei-Lun, Jaber, Aliya, Yerrum, Smitha, Xie, Yingtian, Chow, Kin-Hoe, Cejas, Paloma, Nguyen, Quang-Dé, Long, Henry W., Liu, X. Shirley, Toker, Alex, Brown, Myles

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Comprehensive genomic characterization of HER2-low and HER2-0 breast cancer von Tarantino, Paolo, Gupta, Hersh, Hughes, Melissa E., Files, Janet, Strauss, Sarah, Kirkner, Gregory, Feeney, Anne-Marie, Li, Yvonne, Garrido-Castro, Ana C., Barroso-Sousa, Romualdo, Bychkovsky, Brittany L., DiLascio, Simona, Sholl, Lynette, MacConaill, Laura, Lindeman, Neal, Johnson, Bruce E., Meyerson, Matthew, Jeselsohn, Rinath, Qiu, Xintao, Li, Rong, Long, Henry, Winer, Eric P., Dillon, Deborah, Curigliano, Giuseppe, Cherniack, Andrew D., Tolaney, Sara M., Lin, Nancy U.

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Gene regulatory network construction identified NFYA as a diffuse subtype-specific prognostic factor in gastric cancer von Cao, Bin, Zhao, Yu, Zhang, Zheng, Li, Hengcun, Xing, Jie, Guo, Shuilong, Qiu, Xintao, Zhang, Shutian, Min, Li, Zhu, Shengtao

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Author Correction: Comprehensive genomic characterization of HER2-low and HER2-0 breast cancer von Tarantino, Paolo, Gupta, Hersh, Hughes, Melissa E., Files, Janet, Strauss, Sarah, Kirkner, Gregory, Feeney, Anne-Marie, Li, Yvonne, Garrido-Castro, Ana C., Barroso-Sousa, Romualdo, Bychkovsky, Brittany L., DiLascio, Simona, Sholl, Lynette, MacConaill, Laura, Lindeman, Neal, Johnson, Bruce E., Meyerson, Matthew, Jeselsohn, Rinath, Qiu, Xintao, Li, Rong, Long, Henry, Winer, Eric P., Dillon, Deborah, Curigliano, Giuseppe, Cherniack, Andrew D., Tolaney, Sara M., Lin, Nancy U.

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ZBTB7A is a modulator of KDM5-driven transcriptional networks in basal breast cancer von DiCiaccio, Benedetto, Seehawer, Marco, Li, Zheqi, Patmanidis, Andriana, Bui, Triet, Foidart, Pierre, Nishida, Jun, D’Santos, Clive S., Papachristou, Evangelia K., Papanastasiou, Malvina, Reiter, Andrew H., Qiu, Xintao, Li, Rong, Jiang, Yijia, Huang, Xiao-Yun, Simeonov, Anton, Kales, Stephen C., Rai, Ganesha, Lal-Nag, Madhu, Jadhav, Ajit, Brown, Myles, Carroll, Jason S., Long, Henry W., Polyak, Kornelia

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CREB5 Promotes Resistance to Androgen-Receptor Antagonists and Androgen Deprivation in Prostate Cancer von Hwang, Justin H., Seo, Ji-Heui, Beshiri, Michael L., Wankowicz, Stephanie, Liu, David, Cheung, Alexander, Li, Ji, Qiu, Xintao, Hong, Andrew L., Botta, Ginevra, Golumb, Lior, Richter, Camden, So, Jonathan, Sandoval, Gabriel J., Giacomelli, Andrew O., Ly, Seav Huong, Han, Celine, Dai, Chao, Pakula, Hubert, Sheahan, Anjali, Piccioni, Federica, Gjoerup, Ole, Loda, Massimo, Sowalsky, Adam G., Ellis, Leigh, Long, Henry, Root, David E., Kelly, Kathleen, Van Allen, Eliezer M., Freedman, Matthew L., Choudhury, Atish D., Hahn, William C.

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CoBRA: Containerized Bioinformatics Workflow for Reproducible ChIP/ATAC-seq Analysis von Qiu, Xintao, Feit, Avery S., Feiglin, Ariel, Xie, Yingtian, Kesten, Nikolas, Taing, Len, Perkins, Joseph, Gu, Shengqing, Li, Yihao, Cejas, Paloma, Zhou, Ningxuan, Jeselsohn, Rinath, Brown, Myles, Shirley Liu, X., Long, Henry W.

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CDK4/6 inhibition reprograms the breast cancer enhancer landscape by stimulating AP-1 transcriptional activity von Watt, April C, Cejas, Paloma, DeCristo, Molly J, Metzger-Filho, Otto, Lam, Enid Y N, Qiu, Xintao, BrinJones, Haley, Kesten, Nikolas, Coulson, Rhiannon, Font-Tello, Alba, Lim, Klothilda, Vadhi, Raga, Daniels, Veerle W, Montero, Joan, Taing, Len, Meyer, Clifford A, Gilan, Omer, Bell, Charles C, Korthauer, Keegan D, Giambartolomei, Claudia, Pasaniuc, Bogdan, Seo, Ji-Heui, Freedman, Matthew L, Ma, Cynthia, Ellis, Matthew J, Krop, Ian, Winer, Eric, Letai, Anthony, Brown, Myles, Dawson, Mark A, Long, Henry W, Zhao, Jean J, Goel, Shom

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Integrated Analysis Identifies Molecular Signatures and Specific Prognostic Factors for Different Gastric Cancer Subtypes von Min, Li, Zhao, Yu, Zhu, Shengtao, Qiu, Xintao, Cheng, Rui, Xing, Jie, Shao, Linlin, Guo, Shuilong, Zhang, Shutian

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Response to supraphysiological testosterone is predicted by a distinct androgen receptor cistrome von Qiu, Xintao, Brown, Lisha G, Conner, Jennifer L, Nguyen, Holly M, Boufaied, Nadia, Abou Alaiwi, Sarah, Seo, Ji-Heui, El Zarif, Talal, Bell, Connor, O'Connor, Edward, Hanratty, Brian, Pomerantz, Mark, Freedman, Matthew L, Brown, Myles, Haffner, Michael C, Nelson, Peter S, Feng, Felix Y, Labbé, David P, Long, Henry W, Corey, Eva

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Androgen Receptor Is a Non-canonical Inhibitor of Wild-Type and Mutant Estrogen Receptors in Hormone Receptor-Positive Breast Cancers von Ponnusamy, Suriyan, Asemota, Sarah, Schwartzberg, Lee S., Guestini, Fouzia, McNamara, Keely M., Pierobon, Mariaelena, Font-Tello, Alba, Qiu, Xintao, Xie, Yingtian, Rao, Prakash K., Thiyagarajan, Thirumagal, Grimes, Brandy, Johnson, Daniel L., Fleming, Martin D., Pritchard, Frances E., Berry, Michael P., Oswaks, Roy, Fine, Richard E., Brown, Myles, Sasano, Hironobu, Petricoin, Emanuel F., Long, Henry W., Narayanan, Ramesh

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Parameter-efficient fine-tuning for single image snow removal von Dai, Xinwei, Zhou, Yuanbo, Qiu, Xintao, Tang, Hui, Tong, Tong

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