Not logged in 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
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
Standard operating procedure for somatic variant refinement of sequencing data with paired tumor and normal samples Barnell, Erica K.; Ronning, Peter; Campbell, Katie M.; Krysiak, Kilannin; Ainscough, Benjamin J.; Sheta, Lana M.; Pema, Shahil P.; Schmidt, Alina D.; Richters, Megan; Cotto, Kelsy C.; Danos, Arpad M.; Ramirez, Cody; Skidmore, Zachary L.; Spies, Nicholas C.; Hundal, Jasreet; Sediqzad, Malik S.; Kunisaki, Jason; Gomez, Felicia; Trani, Lee; Matlock, Matthew; Wagner, Alex H.; Swamidass, S. Joshua; Griffith, Malachi; Griffith, Obi L. Share Save
The prognostic effects of somatic mutations in ER-positive breast cancer (vol 9, 3476, 2018) Griffith, Obi L.; Spies, Nicholas C.; Anurag, Meenakshi; Griffith, Malachi; Luo, Jingqin; Tu, Dongsheng; Yeo, Belinda; Kunisaki, Jason; Miller, Christopher A.; Krysiak, Kilannin; Hundal, Jasreet; Ainscough, Benjamin J.; Skidmore, Zachary L.; Campbell, Katie; Kumar, Runjun; Fronick, Catrina; Cook, Lisa; Snider, Jacqueline E.; Davies, Sherri; Kavuri, Shyam M.; Chang, Eric C.; Magrini, Vincent; Larson, David E.; Fulton, Robert S.; Liu, Shuzhen; Leung, Samuel; Voduc, David; Bose, Ron; Dowsett, Mitch; Wilson, Richard K.; Nielsen, Torsten O.; Mardis, Elaine R.; Ellis, Matthew J. Share Save
A deep learning approach to automate refinement of somatic variant calling from cancer sequencing data Ainscough, Benjamin J.; Barnell, Erica K.; Ronning, Peter; Campbell, Katie M.; Wagner, Alex H.; Fehniger, Todd A.; Dunn, Gavin P.; Uppaluri, Ravindra; Govindan, Ramaswamy; Rohan, Thomas E.; Griffith, Malachi; Mardis, Elaine R.; Swamidass, S. Joshua; Griffith, Obi L. Share Save
The prognostic effects of somatic mutations in ER-positive breast cancer Griffith, Obi L.; Spies, Nicholas C.; Anurag, Meenakshi; Griffith, Malachi; Luo, Jingqin; Tu, Dongsheng; Yeo, Belinda; Kunisaki, Jason; Miller, Christopher A.; Krysiak, Kilannin; Hundal, Jasreet; Ainscough, Benjamin J.; Skidmore, Zachary L.; Campbell, Katie; Kumar, Runjun; Fronick, Catrina; Cook, Lisa; Snider, Jacqueline E.; Davies, Sherri; Kavuri, Shyam M.; Chang, Eric C.; Magrini, Vincent; Larson, David E.; Fulton, Robert S.; Liu, Shuzhen; Leung, Samuel; Voduc, David; Bose, Ron; Dowsett, Mitch; Wilson, Richard K.; Nielsen, Torsten O.; Mardis, Elaine R.; Ellis, Matthew J. 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
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
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
High-performance web services for querying gene and variant annotation Xin, Jiwen; Mark, Adam; Afrasiabi, Cyrus; Tsueng, Ginger; Juchler, Moritz; Gopal, Nikhil; Stupp, Gregory S.; Putman, Timothy E.; Ainscough, Benjamin J.; Griffith, Obi L.; Torkamani, Ali; Whetzel, Patricia L.; Mungall, Christopher J.; Mooney, Sean D.; Su, Andrew I.; Wu, Chunlei Share Save
Identifying clinically important somatic mutations through a knowledge-based approach Ainscough, Benjamin J.; Griffith, Malachi; Kunisaki, Jason; Coffman, Adam; McMichael, Joshua F.; Eldred, James M.; Walker, Jason R.; Fulton, Robert S.; Wilson, Richard K.; Griffith, Obi L.; Mardis, Elaine R. Share Save
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Identifying clinically important somatic mutations through a knowledge-based approach Ainscough, Benjamin J.; Griffith, Malachi; Kunisaki, Jason; Coffman, Adam; McMichael, Joshua F.; Eldred, James M.; Walker, Jason R.; Fulton, Robert S.; Wilson, Richard K.; Griffith, Obi L.; Mardis, Elaine R. Share Save
DGIdb 2.0: mining clinically relevant drug-gene interactions Wagner, Alex H.; Coffman, Adam C.; Ainscough, Benjamin J.; Spies, Nicholas C.; Skidmore, Zachary L.; Campbell, Katie M.; Krysiak, Kilannin; Pan, Deng; McMichael, Joshua F.; Eldred, James M.; Walker, Jason R.; Wilson, Richard K.; Mardis, Elaine R.; Griffith, Malachi; Griffith, Obi L. Share Save
Loss of PTEN leads to acquired resistance to the PI3Ka inhibitor BYL719: a case of convergent evolution under selective therapeutic pressure Castel, P.; Juric, D.; Griffith, M.; Griffith, O. L.; Won, H. H.; Ainscough, B.; Ellis, H.; Ebbesen, S.; Gopakumar, I.; Quadt, C.; Peters, M.; Solit, D.; Lowe, S. W.; Mardis, E. R.; Berger, M. F.; Scaltriti, M.; Baselga, J. Share Save
Genome-Wide Association Study of CSF Levels of 59 Alzheimer's Disease Candidate Proteins: Significant Associations with Proteins Involved in Amyloid Processing and Inflammation Kauwe, John S. K.; Bailey, Matthew H.; Ridge, Perry G.; Perry, Rachel; Wadsworth, Mark E.; Hoyt, Kaitlyn L.; Staley, Lyndsay A.; Karch, Celeste M.; Harari, Oscar; Cruchaga, Carlos; Ainscough, Benjamin J.; Bales, Kelly; Pickering, Eve H.; Bertelsen, Sarah; Fagan, Anne M.; Holtzman, David M.; Morris, John C.; Goate, Alison M. Share Save
Loss of PTEN leads to clinical resistance to the PI3Kα inhibitor BYL719 and provides evidence of convergent evolution under selective therapeutic pressure Castel, Pau; Juric, Dejan; Won, Helen; Ainscough, Benjamin; Ellis, Haley; Ebbesen, Saya; Griffith, Malachi; Griffith, Obi; Gopakumar, Iyer; Sgroi, Dennis; Isakoff, Steven; Mardis, Elaine; Solit, David; Lowe, Scott; Quadt, Cornelia; Peters, Malte; Berger, Michael; Scaltriti, Maurizio; Baselga, Jose Share Save
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Phosphorylated Tau-Aβ42 Ratio as a Continuous Trait for Biomarker Discovery for Early-Stage Alzheimer's Disease in Multiplex Immunoassay Panels of Cerebrospinal Fluid Harari, Oscar; Cruchaga, Carlos; Kauwe, John S. K.; Ainscough, Benjamin J.; Bales, Kelly; Pickering, Eve H.; Bertelsen, Sarah; Fagan, Anne M.; Holtzman, David M.; Morris, John C.; Goate, Alison M. Share Save
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