Not logged in A New Era of Data-Driven Cancer Research and Care: Opportunities and Challenges Gomez, Felicia; Danos, Arpad M.; Del Fiol, Guilherme; Madabhushi, Anant; Tiwari, Pallavi; Mcmichael, Joshua F.; Bakas, Spyridon; Bian, Jiang; Davatzikos, Christos; Fertig, Elana J.; Kalpathy-Cramer, Jayashree; Kenney, Johanna; Savova, Guergana K.; Yetisgen, Meliha; Van Allen, Eliezer M.; Warner, Jeremy L.; Prior, Fred; Griffith, Malachi; Griffith, Obi L. Share Save
DGIdb 5.0: rebuilding the drug-gene interaction database for precision medicine and drug discovery platforms Cannon, Matthew; Stevenson, James; Stahl, Kathryn; Basu, Rohit; Coffman, Adam; Kiwala, Susanna; McMichael, Joshua F.; Kuzma, Kori; Morrissey, Dorian; Cotto, Kelsy; Mardis, Elaine R.; Griffith, Obi L.; Griffith, Malachi; Wagner, Alex H. Share Save
Computational prediction of MHC anchor locations guides neoantigen identification and prioritization Xia, Huiming; McMichael, Joshua; Becker-Hapak, Michelle; Onyeador, Onyinyechi C.; Buchli, Rico; McClain, Ethan; Pence, Patrick; Supabphol, Suangson; Richters, Megan M.; Basu, Anamika; Ramirez, Cody A.; Puig-Saus, Cristina; Cotto, Kelsy C.; Freshour, Sharon L.; Hundal, Jasreet; Kiwala, Susanna; Goedegebuure, S. Peter; Johanns, Tanner M.; Dunn, Gavin P.; Ribas, Antoni; Miller, Christopher A.; Gillanders, William E.; Fehniger, Todd A.; Griffith, Obi L.; Griffith, Malachi Share Save
ClinGen Somatic and CIViC collaborate to comprehensively evaluate somatic variants in cancer Saliba, Jason; Danos, Arpad; Krysiak, Kilannin; Coffman, Adam; Kiwala, Susanna; McMichael, Joshua; Grisdale, Cameron J.; King, Ian; Selvarajah, Shamini; Xu, Xinjie; Kanagal-Shamanna, Rashmi; Satgunaseelan, Laveniya; Meredith, David; Evans, Mark; Mullighan, Charles G.; Akkari, Yassmine; Raca, Gordana; Roy, Angshumoy; Wagner, Alex H.; Govindan, Ramaswamy; Griffith, Obi L.; Griffith, Malachi Share Save
Integrated analysis of genomic and transcriptomic data for the discovery of splice-associated variants in cancer Cotto, Kelsy C.; Feng, Yang-Yang; Ramu, Avinash; Richters, Megan; Freshour, Sharon L.; Skidmore, Zachary L.; Xia, Huiming; McMichael, Joshua F.; Kunisaki, Jason; Campbell, Katie M.; Chen, Timothy Hung-Po; Rozycki, Emily B.; Adkins, Douglas; Devarakonda, Siddhartha; Sankararaman, Sumithra; Lin, Yiing; Chapman, William C.; Maher, Christopher A.; Arora, Vivek; Dunn, Gavin P.; Uppaluri, Ravindra; Govindan, Ramaswamy; Griffith, Obi L.; Griffith, Malachi Share Save
CIViCdb 2022: evolution of an open-access cancer variant interpretation knowledgebase Krysiak, Kilannin; Danos, Arpad M.; Saliba, Jason; McMichael, Joshua F.; Coffman, Adam C.; Kiwala, Susanna; Barnell, Erica K.; Sheta, Lana; Grisdale, Cameron J.; Kujan, Lynzey; Pema, Shahil; Lever, Jake; Ridd, Sarah; Spies, Nicholas C.; Andric, Veronica; Chiorean, Andreea; Rieke, Damian T.; Clark, Kaitlin A.; Reisle, Caralyn; Venigalla, Ajay C.; Evans, Mark; Jani, Payal; Takahashi, Hideaki; Suda, Avila; Horak, Peter; Ritter, Deborah, I; Zhou, Xin; Ainscough, Benjamin J.; Delong, Sean; Kesserwan, Chimene; Lamping, Mario; Shen, Haolin; Marr, Alex R.; Hoang, My H.; Singhal, Kartik; Khanfar, Mariam; Li, Brian, V; Lin, Wan-Hsin; Terraf, Panieh; Corson, Laura B.; Salama, Yasser; Campbell, Katie M.; Farncombe, Kirsten M.; Ji, Jianling; Zhao, Xiaonan; Xu, Xinjie; Kanagal-Shamanna, Rashmi; King, Ian; Cotto, Kelsy C.; Skidmore, Zachary L.; Walker, Jason R.; Zhang, Jinghui; Milosavljevic, Aleksandar; Patel, Ronak Y.; Giles, Rachel H.; Kim, Raymond H.; Schriml, Lynn M.; Mardis, Elaine R.; Jones, Steven J. M.; Raca, Gordana; Rao, Shruti; Madhavan, Subha; Wagner, Alex H.; Griffith, Malachi; Griffith, Obi L. 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
A community approach to the cancer-variant-interpretation bottleneck Krysiak, Kilannin; Danos, Arpad M.; Kiwala, Susanna; McMichael, Joshua F.; Coffman, Adam C.; Barnell, Erica K.; Sheta, Lana; Saliba, Jason; Grisdale, Cameron J.; Kujan, Lynzey; Pema, Shahil; Lever, Jake; Spies, Nicholas C.; Chiorean, Andreea; Rieke, Damian T.; Clark, Kaitlin A.; Jani, Payal; Takahashi, Hideaki; Horak, Peter; Ritter, Deborah, I; Zhou, Xin; Ainscough, Benjamin J.; Delong, Sean; Lamping, Mario; Marr, Alex R.; Li, Brian, V; Lin, Wan-Hsin; Terraf, Panieh; Salama, Yasser; Campbell, Katie M.; Farncombe, Kirsten M.; Ji, Jianling; Zhao, Xiaonan; Xu, Xinjie; Kanagal-Shamanna, Rashmi; Cotto, Kelsy C.; Skidmore, Zachary L.; Walker, Jason R.; Zhang, Jinghui; Milosavljevic, Aleksandar; Patel, Ronak Y.; Giles, Rachel H.; Kim, Raymond H.; Schriml, Lynn M.; Mardis, Elaine R.; Jones, Steven J. M.; Raca, Gordana; Rao, Shruti; Madhavan, Subha; Wagner, Alex H.; Griffith, Obi L.; Griffith, Malachi 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
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CIViCpy: A Python Software Development and Analysis Toolkit for the CIViC Knowledgebase Wagner, Alex H.; Kiwala, Susanna; Coffman, Adam C.; McMichael, Joshua F.; Cotto, Kelsy C.; Mooney, Thomas B.; Barnell, Erica K.; Krysiak, Kilannin; Danos, Arpad M.; Walker, Jason; Griffith, Obi L.; Griffith, Malachi Share Save
Adding CIViC knowledge to variant annotation pipelines with CIViCpy Kiwala, Susanna; Wagner, Alex H.; Coffman, Adam C.; McMichael, Joshua F.; Cotto, Kelsy C.; Mooney, Thomas B.; Barnell, Erica K.; Krysiak, Kilannin; Danos, Arpad M.; Walker, Jason M.; Griffith, Obi L.; Griffith, Malachi Share Save
Evolution of the CIViC knowledgebase for community driven curation of clinical variants in cancer Danos, Arpad; Krysiak, Kilannin; Barnell, Erica K.; Coffman, Adam C.; McMichael, Joshua F.; Kiwala, Susanna; Spies, Nicholas C.; Sheta, Lana M.; Pema, Shahil P.; Kujan, Lynzey; Clark, Kaitlin A.; Anderson, Sydney; Wollam, Amber; Li, Brian; Guerra, Justin; Rao, Shruti; Ritter, Deborah, I; Grisdale, Cameron J.; Raca, Gordana; Wagner, Alex H.; Madhavan, Subha; Griffith, Malachi; Griffith, Obi L. 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
Adapting crowdsourced clinical cancer curation in CIViC to the ClinGen minimum variant level data community-driven standards Danos, Arpad M.; Ritter, Deborah I.; Wagner, Alex H.; Krysiak, Kilannin; Sonkin, Dmitriy; Micheel, Christine; McCoy, Matthew; Rao, Shruti; Raca, Gordana; Boca, Simina M.; Roy, Angshumoy; Barnell, Erica K.; McMichael, Joshua F.; Kiwala, Susanna; Coffman, Adam C.; Kujan, Lynzey; Kulkarni, Shashikant; Griffith, Malachi; Madhavan, Subha; Griffith, Obi L. Share Save
Expanding the CIViC variant to complex combinations of regions in the cancer genome Danos, Arpad; Krysiak, Kilannin; Wagner, Alex; Kiwala, Susanna; McMichael, Joshua; Coffman, Adam; Barnell, Erica; Feng, Yang-Yang; Ainscough, Benjamin; Ramirez, Cody; Griffith, Malachi; Griffith, Obi Share Save
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Implementing evolving clinical standards in a variant interpretation knowledgebase Krysiak, Kilannin; Danos, Arpad M.; Wagner, Alex H.; Kiwala, Susanna; McMichael, Joshua F.; Coffman, Adam C.; Barnell, Erica K.; Feng, Yan-Yang; Ainscough, Benjamin J.; Ramirez, Cody A.; Griffith, Malachi; Griffith, Obi L. Share Save
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DoCM: a database of curated mutations in cancer Ainscough, Benjamin J.; Griffith, Malachi; Coffman, Adam C.; Wagner, Alex H.; Kunisaki, Jason; Choudhary, Mayank N. K.; McMichael, Joshua F.; Fulton, Robert S.; Wilson, Richard K.; Griffith, Obi L.; Mardis, Elaine R. Share Save
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