Divergent viral presentation among human tumors and adjacent normal tissues

por Cao, Song, Wendl, Michael C., Wyczalkowski, Matthew A., Wylie, Kristine, Ye, Kai, Jayasinghe, Reyka, Xie, Mingchao, Wu, Song, Niu, Beifang, Grubb, Robert, Johnson, Kimberly J., Gay, Hiram, Chen, Ken, Rader, Janet S., Dipersio, John F., Chen, Feng, Ding, Li
Publicado 2016

Discovery of driver non-coding splice-site-creating mutations in cancer

por Cao, Song, Zhou, Daniel Cui, Oh, Clara, Jayasinghe, Reyka G., Zhao, Yanyan, Yoon, Christopher J., Wyczalkowski, Matthew A., Bailey, Matthew H., Tsou, Terrence, Gao, Qingsong, Malone, Andrew, Reynolds, Sheila, Shmulevich, Ilya, Wendl, Michael C., Chen, Feng, Ding, Li
Publicado 2020

GenomeVIP: a cloud platform for genomic variant discovery and interpretation

por Mashl, R. Jay, Scott, Adam D., Huang, Kuan-lin, Wyczalkowski, Matthew A., Yoon, Christopher J., Niu, Beifang, DeNardo, Erin, Yellapantula, Venkata D., Handsaker, Robert E., Chen, Ken, Koboldt, Daniel C., Ye, Kai, Fenyö, David, Raphael, Benjamin J., Wendl, Michael C., Ding, Li
Publicado 2017

Spatially interacting phosphorylation sites and mutations in cancer

por Huang, Kuan-lin, Scott, Adam D., Zhou, Daniel Cui, Wang, Liang-Bo, Weerasinghe, Amila, Elmas, Abdulkadir, Liu, Ruiyang, Wu, Yige, Wendl, Michael C., Wyczalkowski, Matthew A., Baral, Jessika, Sengupta, Sohini, Lai, Chin-Wen, Ruggles, Kelly, Payne, Samuel H., Raphael, Benjamin, Fenyö, David, Chen, Ken, Mills, Gordon, Ding, Li
Publicado 2021

Mutational landscape and significance across 12 major cancer types

por Kandoth, Cyriac, McLellan, Michael D., Vandin, Fabio, Ye, Kai, Niu, Beifang, Lu, Charles, Xie, Mingchao, Zhang, Qunyuan, McMichael, Joshua F., Wyczalkowski, Matthew A., Leiserson, Mark D. M., Miller, Christopher A., Welch, John S., Walter, Matthew J., Wendl, Michael C., Ley, Timothy J., Wilson, Richard K., Raphael, Benjamin J., Ding, Li
Publicado 2013

Pollock: fishing for cell states

por Storrs, Erik P, Zhou, Daniel Cui, Wendl, Michael C, Wyczalkowski, Matthew A, Karpova, Alla, Wang, Liang-Bo, Li, Yize, Southard-Smith, Austin, Jayasinghe, Reyka G, Yao, Lijun, Liu, Ruiyang, Wu, Yige, Terekhanova, Nadezhda V, Zhu, Houxiang, Herndon, John M, Puram, Sid, Chen, Feng, Gillanders, William E, Fields, Ryan C, Ding, Li
Publicado 2022

Integrative omics analyses broaden treatment targets in human cancer

por Sengupta, Sohini, Sun, Sam Q., Huang, Kuan-lin, Oh, Clara, Bailey, Matthew H., Varghese, Rajees, Wyczalkowski, Matthew A., Ning, Jie, Tripathi, Piyush, McMichael, Joshua F., Johnson, Kimberly J., Kandoth, Cyriac, Welch, John, Ma, Cynthia, Wendl, Michael C., Payne, Samuel H., Fenyö, David, Townsend, Reid R., Dipersio, John F., Chen, Feng, Ding, Li
Publicado 2018

Driver Fusions and Their Implications in the Development and Treatment of Human Cancers

por Gao, Qingsong, Liang, Wen-Wei, Foltz, Steven M., Mutharasu, Gnanavel, Jayasinghe, Reyka G., Cao, Song, Liao, Wen-Wei, Reynolds, Sheila M., Wyczalkowski, Matthew A., Yao, Lijun, Yu, Lihua, Sun, Sam Q., Chen, Ken, Lazar, Alexander J., Fields, Ryan C., Wendl, Michael C., Van Tine, Brian A., Vij, Ravi, Chen, Feng, Nykter, Matti, Shmulevich, Ilya, Ding, Li
Publicado 2018

Systematic Analysis of Splice-Site-Creating Mutations in Cancer

por Jayasinghe, Reyka G., Cao, Song, Gao, Qingsong, Wendl, Michael C., Vo, Nam Sy, Reynolds, Sheila M., Zhao, Yanyan, Climente-González, Héctor, Chai, Shengjie, Wang, Fang, Varghese, Rajees, Huang, Mo, Liang, Wen-Wei, Wyczalkowski, Matthew A., Sengupta, Sohini, Li, Zhi, Payne, Samuel H., Fenyö, David, Miner, Jeffrey H., Walter, Matthew J., Vincent, Benjamin, Eyras, Eduardo, Chen, Ken, Shmulevich, Ilya, Chen, Feng, Ding, Li
Publicado 2018

Integrated Analysis of Germline and Somatic Variants in Ovarian Cancer

por Kanchi, Krishna L., Johnson, Kimberly J., Lu, Charles, McLellan, Michael D., Leiserson, Mark D.M., Wendl, Michael C., Zhang, Qunyuan, Koboldt, Daniel C., Xie, Mingchao, Kandoth, Cyriac, McMichael, Joshua F., Wyczalkowski, Matthew A., Larson, David E., Schmidt, Heather K., Miller, Christopher A., Fulton, Robert S., Spellman, Paul T., Mardis, Elaine R., Druley, Todd E., Graubert, Timothy A., Goodfellow, Paul J., Raphael, Benjamin J., Wilson, Richard K., Ding, Li
Publicado 2014

The Genomic Landscape of Childhood and Adolescent Melanoma

por Lu, Charles, Zhang, Jinghui, Nagahawatte, Panduka, Easton, John, Lee, Seungjae, Liu, Zhifa, Ding, Li, Wyczalkowski, Matthew A, Valentine, Marcus, Navid, Fariba, Mulder, Heather, Tatevossian, Ruth G, Dalton, James, Davenport, James, Yin, Zhirong, Edmonson, Michael, Rusch, Michael, Wu, Gang, Li, Yongjin, Parker, Matthew, Hedlund, Erin, Shurtleff, Sheila, Raimondi, Susana, Bhavin, Vadodaria, Donald, Yergeau, Mardis, Elaine R, Wilson, Richard K, Evans, William E, Ellison, David W, Pounds, Stanley, Dyer, Michael, Downing, James R, Pappo, Alberto, Bahrami, Armita
Publicado 2015

Single-Cell Discovery and Multiomic Characterization of Therapeutic Targets in Multiple Myeloma

por Yao, Lijun, Wang, Julia T., Jayasinghe, Reyka G., O'Neal, Julie, Tsai, Chia-Feng, Rettig, Michael P., Song, Yizhe, Liu, Ruiyang, Zhao, Yanyan, Ibrahim, Omar M., Fiala, Mark A., Fortier, Julie M., Chen, Siqi, Gehrs, Leah, Rodrigues, Fernanda Martins, Wendl, Michael C., Kohnen, Daniel, Shinkle, Andrew, Cao, Song, Foltz, Steven M., Zhou, Daniel Cui, Storrs, Erik, Wyczalkowski, Matthew A., Mani, Smrithi, Goldsmith, Scott R., Zhu, Ying, Hamilton, Mark, Liu, Tao, Chen, Feng, Vij, Ravi, Ding, Li, DiPersio, John F.
Publicado 2023

Co-evolution of tumor and immune cells during progression of multiple myeloma

por Liu, Ruiyang, Gao, Qingsong, Foltz, Steven M., Fowles, Jared S., Yao, Lijun, Wang, Julia Tianjiao, Cao, Song, Sun, Hua, Wendl, Michael C., Sethuraman, Sunantha, Weerasinghe, Amila, Rettig, Michael P., Storrs, Erik P., Yoon, Christopher J., Wyczalkowski, Matthew A., McMichael, Joshua F., Kohnen, Daniel R., King, Justin, Goldsmith, Scott R., O’Neal, Julie, Fulton, Robert S., Fronick, Catrina C., Ley, Timothy J., Jayasinghe, Reyka G., Fiala, Mark A., Oh, Stephen T., DiPersio, John F., Vij, Ravi, Ding, Li
Publicado 2021

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy

por Krug, Karsten, Jaehnig, Eric J., Satpathy, Shankha, Blumenberg, Lili, Karpova, Alla, Anurag, Meenakshi, Miles, George, Mertins, Philipp, Geffen, Yifat, Tang, Lauren C., Heiman, David I., Cao, Song, Maruvka, Yosef E., Lei, Jonathan T., Huang, Chen, Kothadia, Ramani B., Colaprico, Antonio, Birger, Chet, Wang, Jarey, Dou, Yongchao, Wen, Bo, Shi, Zhiao, Liao, Yuxing, Wiznerowicz, Maciej, Wyczalkowski, Matthew A., Chen, Xi Steven, Kennedy, Jacob J., Paulovich, Amanda G., Thiagarajan, Mathangi, Kinsinger, Christopher R., Hiltke, Tara, Boja, Emily S., Mesri, Mehdi, Robles, Ana I., Rodriguez, Henry, Westbrook, Thomas F., Ding, Li, Getz, Gad, Clauser, Karl R., Fenyö, David, Ruggles, Kelly V., Zhang, Bing, Mani, D.R., Carr, Steven A., Ellis, Matthew J., Gillette, Michael A.
Publicado 2020

Epigenetic regulation during cancer transitions across 11 tumour types

por Terekhanova, Nadezhda V., Karpova, Alla, Liang, Wen-Wei, Strzalkowski, Alexander, Chen, Siqi, Li, Yize, Southard-Smith, Austin N., Iglesia, Michael D., Wendl, Michael C., Jayasinghe, Reyka G., Liu, Jingxian, Song, Yizhe, Cao, Song, Houston, Andrew, Liu, Xiuting, Wyczalkowski, Matthew A., Lu, Rita Jui-Hsien, Caravan, Wagma, Shinkle, Andrew, Naser Al Deen, Nataly, Herndon, John M., Mudd, Jacqueline, Ma, Cong, Sarkar, Hirak, Sato, Kazuhito, Ibrahim, Omar M., Mo, Chia-Kuei, Chasnoff, Sara E., Porta-Pardo, Eduard, Held, Jason M., Pachynski, Russell, Schwarz, Julie K., Gillanders, William E., Kim, Albert H., Vij, Ravi, DiPersio, John F., Puram, Sidharth V., Chheda, Milan G., Fuh, Katherine C., DeNardo, David G., Fields, Ryan C., Chen, Feng, Raphael, Benjamin J., Ding, Li
Publicado 2023

Patterns and functional implications of rare germline variants across 12 cancer types

por Lu, Charles, Xie, Mingchao, Wendl, Michael C., Wang, Jiayin, McLellan, Michael D., Leiserson, Mark D. M., Huang, Kuan-lin, Wyczalkowski, Matthew A., Jayasinghe, Reyka, Banerjee, Tapahsama, Ning, Jie, Tripathi, Piyush, Zhang, Qunyuan, Niu, Beifang, Ye, Kai, Schmidt, Heather K., Fulton, Robert S., McMichael, Joshua F., Batra, Prag, Kandoth, Cyriac, Bharadwaj, Maheetha, Koboldt, Daniel C., Miller, Christopher A., Kanchi, Krishna L., Eldred, James M., Larson, David E., Welch, John S., You, Ming, Ozenberger, Bradley A., Govindan, Ramaswamy, Walter, Matthew J., Ellis, Matthew J., Mardis, Elaine R., Graubert, Timothy A., Dipersio, John F., Ley, Timothy J., Wilson, Richard K., Goodfellow, Paul J., Raphael, Benjamin J., Chen, Feng, Johnson, Kimberly J., Parvin, Jeffrey D., Ding, Li
Publicado 2015

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

por Huang, Kuan-lin, Li, Shunqiang, Mertins, Philipp, Cao, Song, Gunawardena, Harsha P., Ruggles, Kelly V., Mani, D. R., Clauser, Karl R., Tanioka, Maki, Usary, Jerry, Kavuri, Shyam M., Xie, Ling, Yoon, Christopher, Qiao, Jana W, Wrobel, John, Wyczalkowski, Matthew A., Erdmann-Gilmore, Petra, Snider, Jacqueline E., Hoog, Jeremy, Singh, Purba, Niu, Beifang, Guo, Zhanfang, Sun, Sam Qiancheng, Sanati, Souzan, Kawaler, Emily, Wang, Xuya, Scott, Adam, Ye, Kai, McLellan, Michael D., Wendl, Michael C., Malovannaya, Anna, Held, Jason M., Gillette, Michael A., Fenyö, David, Kinsinger, Christopher R., Mesri, Mehdi, Rodriguez, Henry, Davies, Sherri R., Perou, Charles M., Ma, Cynthia, Reid Townsend, R., Chen, Xian, Carr, Steven A., Ellis, Matthew J., Ding, Li
Publicado 2017

Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

por Huang, Kuan-lin, Li, Shunqiang, Mertins, Philipp, Cao, Song, Gunawardena, Harsha P., Ruggles, Kelly V., Mani, D. R., Clauser, Karl R., Tanioka, Maki, Usary, Jerry, Kavuri, Shyam M., Xie, Ling, Yoon, Christopher, Qiao, Jana W., Wrobel, John, Wyczalkowski, Matthew A., Erdmann-Gilmore, Petra, Snider, Jacqueline E., Hoog, Jeremy, Singh, Purba, Niu, Beifang, Guo, Zhanfang, Sun, Sam Qiancheng, Sanati, Souzan, Kawaler, Emily, Wang, Xuya, Scott, Adam, Ye, Kai, McLellan, Michael D., Wendl, Michael C., Malovannaya, Anna, Held, Jason M., Gillette, Michael A., Fenyö, David, Kinsinger, Christopher R., Mesri, Mehdi, Rodriguez, Henry, Davies, Sherri R., Perou, Charles M., Ma, Cynthia, Townsend, R. Reid, Chen, Xian, Carr, Steven A., Ellis, Matthew J., Ding, Li
Publicado 2017

Comprehensive characterization of 536 patient-derived xenograft models prioritizes candidates for targeted treatment

por Sun, Hua, Cao, Song, Mashl, R. Jay, Mo, Chia-Kuei, Zaccaria, Simone, Wendl, Michael C., Davies, Sherri R., Bailey, Matthew H., Primeau, Tina M., Hoog, Jeremy, Mudd, Jacqueline L., Dean, Dennis A., Patidar, Rajesh, Chen, Li, Wyczalkowski, Matthew A., Jayasinghe, Reyka G., Rodrigues, Fernanda Martins, Terekhanova, Nadezhda V., Li, Yize, Lim, Kian-Huat, Wang-Gillam, Andrea, Van Tine, Brian A., Ma, Cynthia X., Aft, Rebecca, Fuh, Katherine C., Schwarz, Julie K., Zevallos, Jose P., Puram, Sidharth V., Dipersio, John F., Davis-Dusenbery, Brandi, Ellis, Matthew J., Lewis, Michael T., Davies, Michael A., Herlyn, Meenhard, Fang, Bingliang, Roth, Jack A., Welm, Alana L., Welm, Bryan E., Meric-Bernstam, Funda, Chen, Feng, Fields, Ryan C., Li, Shunqiang, Govindan, Ramaswamy, Doroshow, James H., Moscow, Jeffrey A., Evrard, Yvonne A., Chuang, Jeffrey H., Raphael, Benjamin J., Ding, Li
Publicado 2021

Author Correction: Comprehensive characterization of 536 patient-derived xenograft models prioritizes candidates for targeted treatment

por Sun, Hua, Cao, Song, Mashl, R. Jay, Mo, Chia-Kuei, Zaccaria, Simone, Wendl, Michael C., Davies, Sherri R., Bailey, Matthew H., Primeau, Tina M., Hoog, Jeremy, Mudd, Jacqueline L., Dean, Dennis A., Patidar, Rajesh, Chen, Li, Wyczalkowski, Matthew A., Jayasinghe, Reyka G., Rodrigues, Fernanda Martins, Terekhanova, Nadezhda V., Li, Yize, Lim, Kian-Huat, Wang-Gillam, Andrea, Van Tine, Brian A., Ma, Cynthia X., Aft, Rebecca, Fuh, Katherine C., Schwarz, Julie K., Zevallos, Jose P., Puram, Sidharth V., Dipersio, John F., Davis-Dusenbery, Brandi, Ellis, Matthew J., Lewis, Michael T., Davies, Michael A., Herlyn, Meenhard, Fang, Bingliang, Roth, Jack A., Welm, Alana L., Welm, Bryan E., Meric-Bernstam, Funda, Chen, Feng, Fields, Ryan C., Li, Shunqiang, Govindan, Ramaswamy, Doroshow, James H., Moscow, Jeffrey A., Evrard, Yvonne A., Chuang, Jeffrey H., Raphael, Benjamin J., Ding, Li
Publicado 2022