Not logged in Multi-omic and spatial analysis of mouse kidneys highlights sex-specific differences in gene regulation across the lifespan Chen, Siqi; Liu, Ruiyang; Mo, Chia-Kuei; Wendl, Michael C.; Houston, Andrew; Lal, Preet; Zhao, Yanyan; Caravan, Wagma; Shinkle, Andrew T.; Abedin-Do, Atieh; Naser Al Deen, Nataly; Sato, Kazuhito; Li, Xiang; Targino da Costa, Andre Luiz N.; Li, Yize; Karpova, Alla; Herndon, John M.; Artyomov, Maxim N.; Rubin, Joshua B.; Jain, Sanjay; Li, Xue; Stewart, Sheila A.; Chen, Feng Share Save
Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages Iglesia, Michael D.; Jayasinghe, Reyka G.; Chen, Siqi; Terekhanova, Nadezhda V.; Herndon, John M.; Storrs, Erik; Karpova, Alla; Zhou, Daniel Cui; Al Deen, Nataly Naser; Shinkle, Andrew T.; Lu, Rita Jui-Hsien; Caravan, Wagma; Houston, Andrew; Zhao, Yanyan; Sato, Kazuhito; Lal, Preet; Street, Cherease; Rodrigues, Fernanda Martins; Southard-Smith, Austin N.; da Costa, Andre Luiz N. Targino; Zhu, Houxiang; Mo, Chia-Kuei; Crowson, Lisa; Fulton, Robert S.; Wyczalkowski, Matthew A.; Fronick, Catrina C.; Fulton, Lucinda A.; Sun, Hua; Davies, Sherri R.; Appelbaum, Elizabeth L.; Chasnoff, Sara E.; Carmody, Madelyn; Brooks, Candace; Liu, Ruiyang; Wendl, Michael C.; Oh, Clara; Bender, Diane; Cruchaga, Carlos; Harari, Oscar; Bredemeyer, Andrea; Lavine, Kory; Bose, Ron; Margenthaler, Julie; Held, Jason M.; Achilefu, Samuel; Ademuyiwa, Foluso; Aft, Rebecca; Ma, Cynthia; Colditz, Graham A.; Ju, Tao; Oh, Stephen T.; Fitzpatrick, James; Hwang, E. Shelley; Shoghi, Kooresh I.; Chheda, Milan G.; Veis, Deborah J.; Chen, Feng; Fields, Ryan C.; Gillanders, William E.; Ding, Li Share Save
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Morph: A feature extraction toolset for spatial transcriptomics Targino da Costa, Andre Luiz N.; Liu, Jingxian; Mo, Chia-Kuei; Storrs, Erik; Southard-Smith, Austin N.; Jayasinghe, Reyka G.; Wang, Julia T.; Iglesia, Michael D.; Wendl, Michael; Chen, Siqi; Houston, Andrew; Karpova, Alla; Li, Yize; Ding, Li Share Save
Combining the Tyrosine Kinase Inhibitor Cabozantinib and the mTORC1/2 Inhibitor Sapanisertib Blocks ERK Pathway Activity and Suppresses Tumor Growth in Renal Cell Carcinoma Wu, Yige; Chen, Siqi; Yang, Xiaolu; Sato, Kazuhito; Lal, Preet; Wang, Yuefan; Shinkle, Andrew T.; Wendl, Michael C.; Primeau, Tina M.; Zhao, Yanyan; Gould, Alanna; Sun, Hua; Mudd, Jacqueline L.; Hoog, Jeremy; Mashl, R. Jay; Wyczalkowski, Matthew A.; Mo, Chia-Kuei; Liu, Ruiyang; Herndon, John M.; Davies, Sherri R.; Liu, Di; Ding, Xi; Evrard, Yvonne A.; Welm, Bryan E.; Lum, David; Koh, Mei Yee; Welm, Alana L.; Chuang, Jeffrey H.; Moscow, Jeffrey A.; Meric-Bernstam, Funda; Govindan, Ramaswamy; Li, Shunqiang; Hsieh, James; Fields, Ryan C.; Lim, Kian-Huat; Ma, Cynthia X.; Zhang, Hui; Ding, Li; Chen, Feng Share Save
Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma (vol 14, 1681, 2023) Wu, Yige; Terekhanova, Nadezhda V.; Caravan, Wagma; Al Deen, Nataly Naser; Lal, Preet; Chen, Siqi; Mo, Chia-Kuei; Cao, Song; Li, Yize; Karpova, Alla; Liu, Ruiyang; Zhao, Yanyan; Shinkle, Andrew; Strunilin, Ilya; Weimholt, Cody; Sato, Kazuhito; Yao, Lijun; Serasanambati, Mamatha; Yang, Xiaolu; Wyczalkowski, Matthew; Zhu, Houxiang; Zhou, Daniel Cui; Jayasinghe, Reyka G.; Mendez, Daniel; Wendl, Michael C.; Clark, David; Newton, Chelsea; Ruan, Yijun; Reimers, Melissa A.; Pachynski, Russell K.; Kinsinger, Chris; Jewell, Scott; Chan, Daniel W.; Zhang, Hui; Chaudhuri, Aadel A.; Chheda, Milan G.; Humphreys, Benjamin D.; Mesri, Mehdi; Rodriguez, Henry; Hsieh, James J.; Ding, Li; Chen, Feng Share Save
Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma Wu, Yige; Terekhanova, Nadezhda V.; Caravan, Wagma; Al Deen, Nataly Naser; Lal, Preet; Chen, Siqi; Mo, Chia-Kuei; Cao, Song; Li, Yize; Karpova, Alla; Liu, Ruiyang; Zhao, Yanyan; Shinkle, Andrew; Strunilin, Ilya; Weimholt, Cody; Sato, Kazuhito; Yao, Lijun; Serasanambati, Mamatha; Yang, Xiaolu; Wyczalkowski, Matthew; Zhu, Houxiang; Zhou, Daniel Cui; Jayasinghe, Reyka G.; Mendez, Daniel; Wendl, Michael C.; Clark, David; Newton, Chelsea; Ruan, Yijun; Reimers, Melissa A.; Pachynski, Russell K.; Kinsinger, Chris; Jewell, Scott; Chan, Daniel W.; Zhang, Hui; Chaudhuri, Aadel A.; Chheda, Milan G.; Humphreys, Benjamin D.; Mesri, Mehdi; Rodriguez, Henry; Hsieh, James J.; Ding, Li; Chen, Feng Share Save
Single-Cell Discovery and Multiomic Characterization of Therapeutic Targets in Multiple Myeloma 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. Share Save
NIH SenNet Consortium to map senescent cells throughout the human lifespan to understand physiological health Lee, Patty J.; Benz, Christopher C.; Blood, Philip; Boerner, Katy; Campisi, Judith; Chen, Feng; Daldrup-Link, Heike; De Jager, Phil; Ding, Li; Duncan, Francesca E.; Eickelberg, Oliver; Fan, Rong; Finkel, Toren; Furman, David; Garovic, Vesna; Gehlenborg, Nils; Glass, Carolyn; Heckenbach, Indra; Joseph, Ziv-Bar; Katiyar, Pragati; Kim, So-Jin; Koenigshoff, Melanie; Kuchel, George A.; Lee, Haesung; Lee, Jun Hee; Ma, Jian; Ma, Qin; Melov, Simon; Metis, Kay; Mora, Ana L.; Musi, Nicolas; Neretti, Nicola; Passos, Joao F.; Rahman, Irfan; Rivera-Mulia, Juan Carlos; Robson, Paul; Rojas, Mauricio; Roy, Ananda L.; Scheibye-Knudsen, Morten; Schilling, Birgit; Shi, Pixu; Silverstein, Jonathan C.; Suryadevara, Vidyani; Xie, Jichun; Wang, Jinhua; Wong, A. Ian; Niedernhofer, Laura J.; Wang, Siyuan (Steven); Anvari, Hannah; Balough, Julia; Benz, Christopher; Bons, Joanna; Brenerman, Boris; Evans, William; Gerencser, Akos; Gregory, Heather; Hansen, Malene; Justice, Jamie; Kapahi, Pankaj; Murad, Natalia; O'Broin, Amy; Pavone, Mary Ellen; Powell, Mark; Scott, Gary; Shanes, Elisheva; Shankaran, Mahalakshmi; Verdin, Eric; Winer, Daniel; Wu, Fei; Adams, Andrew; Blood, Philip D.; Bueckle, Andreas; Cao-Berg, Ivan; Chen, Hao; Davis, Michael; Filus, Shane; Hao, Yuhan; Hartman, Austin; Hasanaj, Euxhen; Helfer, Jesse; Herr, Bruce, II; Bar Joseph, Ziv; Molla, Gesmira; Mou, Gloria; Puerto, Juan; Quardokus, Ellen M.; Ropelewski, Alexander J.; Ruffalo, Matt; Satija, Rahul; Schwenk, Melissa; Scibek, Robin; Shirey, William; Sibilla, Max; Welling, Joel; Yuan, Zhou; Bonneau, Richard; Christiano, Angela; Izar, Benjamin; Menon, Vilas; Owens, David M.; Phatnani, Hemali; Smith, Colin; Suh, Yousin; Teich, Andrew F.; Bekker, Valerie; Chan, Cliburn; Coutavas, Elias; Hartwig, Matthew G.; Ji, Zhicheng; Nixon, Andrew B.; Dou, Zhixun; Rajagopal, Jayaraj; Slavov, Nikolai; Holmes, David, III; Jurk, Diana; Kirkland, James L.; Lagnado, Anthony; Tchkonia, Tamara; Abraham, Kristin; Dibattista, Amanda; Fridell, Yih-Woei; Howcroft, T. Kevin; Jhappan, Chamelli; Montes, Viviana Perez; Prabhudas, Mercy; Resat, Haluk; Taylor, Veronica; Kumar, Manoj; Cigarroa, Francisco; Cohn, Rachel; Cortes, Tiffany M.; Courtois, Elise; Chuang, Jeffrey; Dave, Monica; Domanskyi, Sergii; Enninga, Elizabeth Ann Lieser; Eryilmaz, Giray Naim; Espinoza, Sara E.; Gelfond, Jon; Kirkland, James; Kuo, Chia-Ling; Lehman, Julia S.; Aguayo-Mazzucato, Cristina; Meves, Alexander; Rani, Meenakshi; Sanders, Shane; Thibodeau, Asa; Tullius, Stefan G.; Ucar, Duygu; White, Brian; Wu, Qian; Xu, Ming; Yamaguchi, Seiji; Assarzadegan, Naziheh; Cho, Chun-Seok; Hwang, Irene; Hwang, Yongha; Xi, Jingyue; Adeyi, Oyedele A.; Aliferis, Constantin F.; Bartolomucci, Alessandro; Dong, Xiao; DuFresne-To, Mickayla J.; Ikramuddin, Sayeed; Johnson, Steve G.; Nelson, Andrew C.; Revelo, Xavier S.; Trevilla-Garcia, Claudia; Sedivy, John M.; Thompson, Elizabeth L.; Robbins, Paul D.; Wang, Jinhua; Aird, Katherine M.; Alder, Jonathan K.; Beaulieu, Delphine; Bueno, Marta; Calyeca, Jazmin; Chamucero-Millaris, Julian A.; Chan, Stephen Y.; Chung, Dongjun; Corbett, Anthony; Gorbunova, Vera; Gowdy, Kymberly M.; Gurkar, Aditi; Horowitz, Jeffrey C.; Hu, Qianjiang; Kaur, Gagandeep; Khaliullin, Timur O.; Lafyatis, Robert; Lanna, Serafina; Li, Dongmei; Ma, Anjun; Morris, Alison; Muthumalage, Thivanka M.; Peters, Victor; Pryhuber, Gloria S.; Reader, Brenda F.; Rosas, Lorena; Sembrat, John C.; Shaikh, Sadiya; Shi, Hangchuan; Stacey, Sean D.; St Croix, Claudette; Wang, Cankun; Wang, Qixin; Watts, Andrew; Gu, Liangcai; Lin, Yiing; Rabinovitch, Peter S.; Sweetwyne, Mariya T.; Artyomov, Maxim N.; Ballentine, Samuel J.; Chheda, Milan G.; Davies, Sherri R.; DiPersio, John F.; Fields, Ryan C.; Fitzpatrick, James A. J.; Fulton, Robert S.; Imai, Shin-ichiro; Jain, Sanjay; Ju, Tao; Kushnir, Vladimir M.; Link, Daniel C.; Ben Major, Michael; Oh, Stephen T.; Rapp, Daniel; Rettig, Michael P.; Stewart, Shelia A.; Veis, Deborah J.; Vij, Kiran R.; Wendl, Michael C.; Wyczalkowski, Matthew A.; Craft, Joseph E.; Enninful, Archibald; Farzad, Negin; Gershkovich, Peter; Halene, Stephanie; Kluger, Yuval; VanOudenhove, Jennifer; Xu, Mina; Yang, Junchen; Yang, Mingyu Share Save
Spatially restricted drivers and transitional cell populations cooperate with the microenvironment in untreated and chemo-resistant pancreatic cancer Zhou, Daniel Cui; Jayasinghe, Reyka G.; Chen, Siqi; Herndon, John M.; Iglesia, Michael D.; Navale, Pooja; Wendl, Michael C.; Caravan, Wagma; Sato, Kazuhito; Storrs, Erik; Mo, Chia-Kuei; Liu, Jingxian; Southard-Smith, Austin N.; Wu, Yige; Al Deen, Nataly Naser; Baer, John M.; Fulton, Robert S.; Wyczalkowski, Matthew A.; Liu, Ruiyang; Fronick, Catrina C.; Fulton, Lucinda A.; Shinkle, Andrew; Thammavong, Lisa; Zhu, Houxiang; Sun, Hua; Wang, Liang-Bo; Li, Yize; Zuo, Chong; McMichael, Joshua F.; Davies, Sherri R.; Appelbaum, Elizabeth L.; Robbins, Keenan J.; Chasnoff, Sara E.; Yang, Xiaolu; Reeb, Ashley N.; Oh, Clara; Serasanambati, Mamatha; Lal, Preet; Varghese, Rajees; Mashl, Jay R.; Ponce, Jennifer; Terekhanova, Nadezhda, V; Yao, Lijun; Wang, Fang; Chen, Lijun; Schnaubelt, Michael; Lu, Rita Jui-Hsien; Schwarz, Julie K.; Puram, Sidharth, V; Kim, Albert H.; Song, Sheng-Kwei; Shoghi, Kooresh, I; Lau, Ken S.; Ju, Tao; Chen, Ken; Chatterjee, Deyali; Hawkins, William G.; Zhang, Hui; Achilefu, Samuel; Chheda, Milan G.; Oh, Stephen T.; Gillanders, William E.; Chen, Feng; DeNardo, David G.; Fields, Ryan C.; Ding, Li Share Save
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Comprehensive characterization of 536 patient-derived xenograft models prioritizes candidatesfor targeted treatment 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.; Consortium, Nci PDXNet; 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 Share Save
Co-evolution of tumor and immune cells during progression of multiple myeloma 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 Share Save
Spatially interacting phosphorylation sites and mutations in cancer 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; Fenyo, David; Chen, Ken; Mills, Gordon; Ding, Li Share Save
MSIsensor-ct: microsatellite instability detection using cfDNA sequencing data Han, Xinyin; Zhang, Shuying; Zhou, Daniel Cui; Wang, Dongliang; He, Xiaoyu; Yuan, Danyang; Li, Ruilin; He, Jiayin; Duan, Xiaohong; Wendl, Michael C.; Ding, Li; Niu, Beifang Share Save
Discovery of driver non-coding splice-site-creating mutations in cancer 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 Share Save
Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability Huang, Kuan-lin; Wu, Yige; Primeau, Tina; Wang, Yi-Ting; Gao, Yuqian; McMichael, Joshua F.; Scott, Adam D.; Cao, Song; Wendl, Michael C.; Johnson, Kimberly J.; Ruggles, Kelly; Held, Jason; Payne, Samuel H.; Davies, Sherri; Dar, Arvin; Kinsinger, Christopher R.; Mesri, Mehdi; Rodriguez, Henry; Ellis, Matthew J.; Townsend, R. Reid; Chen, Feng; Fenyo, David; Li, Shunqiang; Liu, Tao; Carr, Steven A.; Ding, Li Share Save
Integrated transcriptomic-genomic tool Texomer profiles cancer tissues Wang, Fang; Zhang, Shaojun; Kim, Tae-Beom; Lin, Yu-yu; Iqbal, Ramiz; Wang, Zixing; Mohanty, Vakul; Sircar, Kanishka; Karam, Jose A.; Wendl, Michael C.; Meric-Bernstam, Funda; Weinstein, John N.; Ding, Li; Mills, Gordon B.; Chen, Ken Share Save
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Comprehensive portrait of canonical and non-canonical splicing in cancer Jayasinghe, Reyka G.; Cao, Song; Gao, Qingsong; Wyczalkowski, Matthew A.; Sengupta, Sohini; Walter, Matthew J.; Maher, Christopher; Wendl, Michael C.; Chen, Feng; Eyras, Eduardo; Lazar, Alexander J.; Chen, Ken; Shmulevich, Ilya; Ding, Li Share Save
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