Integrated Analysis Identifies Molecular Signatures and Specific Prognostic Factors for Different Gastric Cancer Subtypes()

por Min, Li, Zhao, Yu, Zhu, Shengtao, Qiu, Xintao, Cheng, Rui, Xing, Jie, Shao, Linlin, Guo, Shuilong, Zhang, Shutian
Publicado 2016

Gene regulatory network construction identified NFYA as a diffuse subtype-specific prognostic factor in gastric cancer

por Cao, Bin, Zhao, Yu, Zhang, Zheng, Li, Hengcun, Xing, Jie, Guo, Shuilong, Qiu, Xintao, Zhang, Shutian, Min, Li, Zhu, Shengtao
Publicado 2018

Androgen receptor reprogramming demarcates prognostic, context-dependent gene sets in primary and metastatic prostate cancer

por Severson, Tesa, Qiu, Xintao, Alshalalfa, Mohammed, Sjöström, Martin, Quigley, David, Bergman, Andries, Long, Henry, Feng, Felix, Freedman, Matthew L., Zwart, Wilbert, Pomerantz, Mark M.
Publicado 2022

CoBRA: Containerized Bioinformatics Workflow for Reproducible ChIP/ATAC-seq Analysis

por 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.
Publicado 2021

VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis

por 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.
Publicado 2018

Integrative analyses of single-cell transcriptome and regulome using MAESTRO

por 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
Publicado 2020

Combination Therapies to Improve the Efficacy of Immunotherapy in Triple-negative Breast Cancer

por Alečković, Maša, Li, Zheqi, Zhou, Ningxuan, Qiu, Xintao, Lulseged, Bethlehem, Foidart, Pierre, Huang, Xiao-Yun, Garza, Kodie, Shu, Shaokun, Kesten, Nikolas, Li, Rong, Lim, Klothilda, Garrido-Castro, Ana C., Guerriero, Jennifer L., Qi, Jun, Long, Henry W., Polyak, Kornelia
Publicado 2023

Progesterone receptor isoforms, agonists and antagonists differentially reprogram estrogen signaling

por Singhal, Hari, Greene, Marianne E., Zarnke, Allison L., Laine, Muriel, Al Abosy, Rose, Chang, Ya-Fang, Dembo, Anna G., Schoenfelt, Kelly, Vadhi, Raga, Qiu, Xintao, Rao, Prakash, Santhamma, Bindu, Nair, Hareesh B., Nickisch, Klaus J., Long, Henry W., Becker, Lev, Brown, Myles, Greene, Geoffrey L.
Publicado 2017

Response to supraphysiological testosterone is predicted by a distinct androgen receptor cistrome

por 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
Publicado 2022

Androgen Receptor Is a Non-canonical Inhibitor of Wild-Type and Mutant Estrogen Receptors in Hormone Receptor-Positive Breast Cancers

por 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
Publicado 2019

TRPS1 Is a Lineage-Specific Transcriptional Dependency in Breast Cancer

por Witwicki, Robert M., Ekram, Muhammad B., Qiu, Xintao, Janiszewska, Michalina, Shu, Shaokun, Kwon, Mijung, Trinh, Anne, Frias, Elizabeth, Ramadan, Nadire, Hoffman, Greg, Yu, Kristine, Xie, Yingtian, McAllister, Gregory, McDonald, Rob, Golji, Javad, Schlabach, Michael, deWeck, Antoine, Keen, Nicholas, Chan, Ho Man, Ruddy, David, Rejtar, Tomas, Sovath, Sosathya, Silver, Serena, Sellers, William R., Jagani, Zainab, Hogarty, Michael D., Roberts, Charles, Brown, Myles, Stegmaier, Kimberly, Long, Henry, Shivdasani, Ramesh A., Pellman, David, Polyak, Kornelia
Publicado 2018

CREB5 Promotes Resistance to Androgen-Receptor Antagonists and Androgen Deprivation in Prostate Cancer

por 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.
Publicado 2019

JAK–STAT Signaling in Inflammatory Breast Cancer Enables Chemotherapy-Resistant Cell States

por 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
Publicado 2023

MYC drives aggressive prostate cancer by disrupting transcriptional pause release at androgen receptor targets

por Qiu, Xintao, Boufaied, Nadia, Hallal, Tarek, Feit, Avery, de Polo, Anna, Luoma, Adrienne M., Alahmadi, Walaa, Larocque, Janie, Zadra, Giorgia, Xie, Yingtian, Gu, Shengqing, Tang, Qin, Zhang, Yi, Syamala, Sudeepa, Seo, Ji-Heui, Bell, Connor, O’Connor, Edward, Liu, Yang, Schaeffer, Edward M., Jeffrey Karnes, R., Weinmann, Sheila, Davicioni, Elai, Morrissey, Colm, Cejas, Paloma, Ellis, Leigh, Loda, Massimo, Wucherpfennig, Kai W., Pomerantz, Mark M., Spratt, Daniel E., Corey, Eva, Freedman, Matthew L., Shirley Liu, X., Brown, Myles, Long, Henry W., Labbé, David P.
Publicado 2022

Endocrine Therapy Synergizes with SMAC Mimetics to Potentiate Antigen Presentation and Tumor Regression in Hormone Receptor–Positive Breast Cancer

por Hermida-Prado, Francisco, Xie, Yingtian, Sherman, Shira, Nagy, Zsuzsanna, Russo, Douglas, Akhshi, Tara, Chu, Zhengtao, Feit, Avery, Campisi, Marco, Chen, Minyue, Nardone, Agostina, Guarducci, Cristina, Lim, Klothilda, Font-Tello, Alba, Lee, Irene, García-Pedrero, Juana, Cañadas, Israel, Agudo, Judith, Huang, Ying, Sella, Tal, Jin, Qingchun, Tayob, Nabihah, Mittendorf, Elizabeth A., Tolaney, Sara M., Qiu, Xintao, Long, Henry, Symmans, William F., Lin, Jia-Ren, Santagata, Sandro, Bedrosian, Isabelle, Yardley, Denise A., Mayer, Ingrid A., Richardson, Edward T., Oliveira, Giacomo, Wu, Catherine J., Schuster, Eugene F., Dowsett, Mitch, Welm, Alana L., Barbie, David, Metzger, Otto, Jeselsohn, Rinath
Publicado 2023

Subtype heterogeneity and epigenetic convergence in neuroendocrine prostate cancer

por Cejas, Paloma, Xie, Yingtian, Font-Tello, Alba, Lim, Klothilda, Syamala, Sudeepa, Qiu, Xintao, Tewari, Alok K., Shah, Neel, Nguyen, Holly M., Patel, Radhika A., Brown, Lisha, Coleman, Ilsa, Hackeng, Wenzel M., Brosens, Lodewijk, Dreijerink, Koen M. A., Ellis, Leigh, Alaiwi, Sarah Abou, Seo, Ji-Heui, Baca, Sylvan, Beltran, Himisha, Khani, Francesca, Pomerantz, Mark, Dall’Agnese, Alessandra, Crowdis, Jett, Van Allen, Eliezer M., Bellmunt, Joaquim, Morrisey, Colm, Nelson, Peter S., DeCaprio, James, Farago, Anna, Dyson, Nicholas, Drapkin, Benjamin, Liu, X. Shirley, Freedman, Matthew, Haffner, Michael C., Corey, Eva, Brown, Myles, Long, Henry W.
Publicado 2021

Reprogramming of the FOXA1 cistrome in treatment-emergent neuroendocrine prostate cancer

por Baca, Sylvan C., Takeda, David Y., Seo, Ji-Heui, Hwang, Justin, Ku, Sheng Yu, Arafeh, Rand, Arnoff, Taylor, Agarwal, Supreet, Bell, Connor, O’Connor, Edward, Qiu, Xintao, Alaiwi, Sarah Abou, Corona, Rosario I., Fonseca, Marcos A. S., Giambartolomei, Claudia, Cejas, Paloma, Lim, Klothilda, He, Monica, Sheahan, Anjali, Nassar, Amin, Berchuck, Jacob E., Brown, Lisha, Nguyen, Holly M., Coleman, Ilsa M., Kaipainen, Arja, De Sarkar, Navonil, Nelson, Peter S., Morrissey, Colm, Korthauer, Keegan, Pomerantz, Mark M., Ellis, Leigh, Pasaniuc, Bogdan, Lawrenson, Kate, Kelly, Kathleen, Zoubeidi, Amina, Hahn, William C., Beltran, Himisha, Long, Henry W., Brown, Myles, Corey, Eva, Freedman, Matthew L.
Publicado 2021

Liquid biopsy epigenomic profiling for cancer subtyping

por Baca, Sylvan C., Seo, Ji-Heui, Davidsohn, Matthew P., Fortunato, Brad, Semaan, Karl, Sotudian, Shahabbedin, Lakshminarayanan, Gitanjali, Diossy, Miklos, Qiu, Xintao, El Zarif, Talal, Savignano, Hunter, Canniff, John, Madueke, Ikenna, Saliby, Renee Maria, Zhang, Ziwei, Li, Rong, Jiang, Yijia, Taing, Len, Awad, Mark, Chau, Cindy H., DeCaprio, James A., Figg, William D., Greten, Tim F., Hata, Aaron N., Hodi, F. Stephen, Hughes, Melissa E., Ligon, Keith L., Lin, Nancy, Ng, Kimmie, Oser, Matthew G., Meador, Catherine, Parsons, Heather A., Pomerantz, Mark M., Rajan, Arun, Ritz, Jerome, Thakuria, Manisha, Tolaney, Sara M., Wen, Patrick Y., Long, Henry, Berchuck, Jacob E., Szallasi, Zoltan, Choueiri, Toni K., Freedman, Matthew L.
Publicado 2023

Targetable vulnerabilities in T- and NK-cell lymphomas identified through preclinical models

por Ng, Samuel Y., Yoshida, Noriaki, Christie, Amanda L., Ghandi, Mahmoud, Dharia, Neekesh V., Dempster, Joshua, Murakami, Mark, Shigemori, Kay, Morrow, Sara N., Van Scoyk, Alexandria, Cordero, Nicolas A., Stevenson, Kristen E., Puligandla, Maneka, Haas, Brian, Lo, Christopher, Meyers, Robin, Gao, Galen, Cherniack, Andrew, Louissaint, Abner, Nardi, Valentina, Thorner, Aaron R., Long, Henry, Qiu, Xintao, Morgan, Elizabeth A., Dorfman, David M., Fiore, Danilo, Jang, Julie, Epstein, Alan L., Dogan, Ahmet, Zhang, Yanming, Horwitz, Steven M., Jacobsen, Eric D., Santiago, Solimar, Ren, Jian-Guo, Guerlavais, Vincent, Annis, D. Allen, Aivado, Manuel, Saleh, Mansoor N., Mehta, Amitkumar, Tsherniak, Aviad, Root, David, Vazquez, Francisca, Hahn, William C., Inghirami, Giorgio, Aster, Jon C., Weinstock, David M., Koch, Raphael
Publicado 2018

Perturbed myoepithelial cell differentiation in BRCA mutation carriers and in ductal carcinoma in situ

por Ding, Lina, Su, Ying, Fassl, Anne, Hinohara, Kunihiko, Qiu, Xintao, Harper, Nicholas W., Huh, Sung Jin, Bloushtain-Qimron, Noga, Jovanović, Bojana, Ekram, Muhammad, Zi, Xiaoyuan, Hines, William C., Alečković, Maša, Gil del Alcazar, Carlos, Caulfield, Ryan J., Bonal, Dennis M., Nguyen, Quang-De, Merino, Vanessa F., Choudhury, Sibgat, Ethington, Gabrielle, Panos, Laura, Grant, Michael, Herlihy, William, Au, Alfred, Rosson, Gedge D., Argani, Pedram, Richardson, Andrea L., Dillon, Deborah, Allred, D. Craig, Babski, Kirsten, Kim, Elizabeth Min Hui, McDonnell, Charles H., Wagner, Jon, Rowberry, Ron, Bobolis, Kristie, Kleer, Celina G., Hwang, E. Shelley, Blum, Joanne L., Cristea, Simona, Sicinski, Piotr, Fan, Rong, Long, Henry W., Sukumar, Saraswati, Park, So Yeon, Garber, Judy E., Bissell, Mina, Yao, Jun, Polyak, Kornelia
Publicado 2019