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A fully automated vulnerable plaque classifier for oct using co-registered histological images and transfer learning learning Krams, Rob; Chamorro, Luis; Komo, Zimpi; Bashir, Ali; Torii, Ryo; Bourantas, Christos; Zhang, Qianni; Mathur, Anthony; Baumbach, Andreas; Pedrigi, Ryan; de Silva, Ranil Share Save
Longitudinal fundus imaging and its genome-wide association analysis provide evidence for a human retinal aging clock Ahadi, Sara; Wilson, Kenneth A.; Babenko, Boris; McLean, Cory Y.; Bryant, Drew; Pritchard, Orion; Kumar, Ajay; Carrera, Enrique M.; Lamy, Ricardo; Stewart, Jay M.; Varadarajan, Avinash; Berndl, Marc; Kapahi, Pankaj; Bashir, Ali Share Save
Characterization of the immunoglobulin lambda chain locus from diverse populations reveals extensive genetic variation Gibson, William S.; Rodriguez, Oscar L.; Shields, Kaitlyn; Silver, Catherine A.; Dorgham, Abdullah; Emery, Matthew; Deikus, Gintaras; Sebra, Robert; Eichler, Evan E.; Bashir, Ali; Smith, Melissa L.; Watson, Corey T. Share Save
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Machine learning guided aptamer refinement and discovery Bashir, Ali; Yang, Qin; Wang, Jinpeng; Hoyer, Stephan; Chou, Wenchuan; McLean, Cory; Davis, Geoff; Gong, Qiang; Armstrong, Zan; Jang, Junghoon; Kang, Hui; Pawlosky, Annalisa; Scott, Alexander; Dahl, George E.; Berndl, Marc; Dimon, Michelle; Ferguson, B. Scott Share Save
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A Novel Framework for Characterizing Genomic Haplotype Diversity in the Human Immunoglobulin Heavy Chain Locus Rodriguez, Oscar L.; Gibson, William S.; Parks, Tom; Emery, Matthew; Powell, James; Strahl, Maya; Deikus, Gintaras; Auckland, Kathryn; Eichler, Evan E.; Marasco, Wayne A.; Sebra, Robert; Sharp, Andrew J.; Smith, Melissa L.; Bashir, Ali; Watson, Corey T. Share Save
A robust benchmark for detection of germline large deletions and insertions (Jun, 10.1038/s41587-020-0538-8, 2020) Zook, Justin M.; Hansen, Nancy F.; Olson, Nathan D.; Chapman, Lesley; Mullikin, James C.; Xiao, Chunlin; Sherry, Stephen; Koren, Sergey; Phillippy, Adam M.; Boutros, Paul C.; Sahraeian, Sayed Mohammad E.; Huang, Vincent; Rouette, Alexandre; Alexander, Noah; Mason, Christopher E.; Hajirasouliha, Iman; Ricketts, Camir; Lee, Joyce; Tearle, Rick; Fiddes, Ian T.; Barrio, Alvaro Martinez; Wala, Jeremiah; Carroll, Andrew; Ghaffari, Noushin; Rodriguez, Oscar L.; Bashir, Ali; Jackman, Shaun; Farrell, John J.; Wenger, Aaron M.; Alkan, Can; Soylev, Arda; Schatz, Michael C.; Garg, Shilpa; Church, George; Marschall, Tobias; Chen, Ken; Fan, Xian; English, Adam C.; Rosenfeld, Jeffrey A.; Zhou, Weichen; Mills, Ryan E.; Sage, Jay M.; Davis, Jennifer R.; Kaiser, Michael D.; Oliver, John S.; Catalano, Anthony P.; Chaisson, Mark J. P.; Spies, Noah; Sedlazeck, Fritz J.; Salit, Marc Share Save
A robust benchmark for detection of germline large deletions and insertions Zook, Justin M.; Hansen, Nancy F.; Olson, Nathan D.; Chapman, Lesley; Mullikin, James C.; Xiao, Chunlin; Sherry, Stephen; Koren, Sergey; Phillippy, Adam M.; Boutros, Paul C.; Sahraeian, Sayed Mohammad E.; Huang, Vincent; Rouette, Alexandre; Alexander, Noah; Mason, Christopher E.; Hajirasouliha, Iman; Ricketts, Camir; Lee, Joyce; Tearle, Rick; Fiddes, Ian T.; Barrio, Alvaro Martinez; Wala, Jeremiah; Carroll, Andrew; Ghaffari, Noushin; Rodriguez, Oscar L.; Bashir, Ali; Jackman, Shaun; Farrell, John J.; Wenger, Aaron M.; Alkan, Can; Soylev, Arda; Schatz, Michael C.; Garg, Shilpa; Church, George; Marschall, Tobias; Chen, Ken; Fan, Xian; English, Adam C.; Rosenfeld, Jeffrey A.; Zhou, Weichen; Mills, Ryan E.; Sage, Jay M.; Davis, Jennifer R.; Kaiser, Michael D.; Oliver, John S.; Catalano, Anthony P.; Chaisson, Mark J. P.; Spies, Noah; Sedlazeck, Fritz J.; Salit, Marc Share Save
A Complete Genome Screening Program of Clinical Methicillin-Resistant Staphylococcus aureus Isolates Identifies the Origin and Progression of a Neonatal Intensive Care Unit Outbreak Sullivan, Mitchell J.; Altman, Deena R.; Chacko, Kieran, I; Ciferri, Brianne; Webster, Elizabeth; Pak, Theodore R.; Deikus, Gintaras; Lewis-Sandari, Martha; Khan, Zenab; Beckford, Colleen; Rendo, Angela; Samaroo, Flora; Sebra, Robert; Karam-Howlin, Ramona; Dingle, Tanis; Hamula, Camille; Bashir, Ali; Schadt, Eric; Patel, Gopi; Wallach, Frances; Kasarskis, Andrew; Gibbs, Kathleen; van Bakel, Harm Share Save
Multi-platform discovery of haplotype-resolved structural variation in human genomes Chaisson, Mark J. P.; Sanders, Ashley D.; Zhao, Xuefang; Malhotra, Ankit; Porubsky, David; Rausch, Tobias; Gardner, Eugene J.; Rodriguez, Oscar L.; Guo, Li; Collins, Ryan L.; Fan, Xian; Wen, Jia; Handsaker, Robert E.; Fairley, Susan; Kronenberg, Zev N.; Kong, Xiangmeng; Hormozdiari, Fereydoun; Lee, Dillon; Wenger, Aaron M.; Hastie, Alex R.; Antaki, Danny; Anantharaman, Thomas; Audano, Peter A.; Brand, Harrison; Cantsilieris, Stuart; Cao, Han; Cerveira, Eliza; Chen, Chong; Chen, Xintong; Chin, Chen-Shan; Chong, Zechen; Chuang, Nelson T.; Lambert, Christine C.; Church, Deanna M.; Clarke, Laura; Farrell, Andrew; Flores, Joey; Galeev, Timur; Gorkin, David U.; Gujral, Madhusudan; Guryev, Victor; Heaton, William Haynes; Korlach, Jonas; Kumar, Sushant; Kwon, Jee Young; Lam, Ernest T.; Lee, Jong Eun; Lee, Joyce; Lee, Wan-Ping; Lee, Sau Peng; Li, Shantao; Marks, Patrick; Viaud-Martinez, Karine; Meiers, Sascha; Munson, Katherine M.; Navarro, Fabio C. P.; Nelson, Bradley J.; Nodzak, Conor; Noor, Amina; Kyriazopoulou-Panagiotopoulou, Sofia; Pang, Andy W. C.; Qiu, Yunjiang; Rosanio, Gabriel; Ryan, Mallory; Stuetz, Adrian; Spierings, Diana C. J.; Ward, Alistair; Welch, AnneMarie E.; Xiao, Ming; Xu, Wei; Zhang, Chengsheng; Zhu, Qihui; Zheng-Bradley, Xiangqun; Lowy, Ernesto; Yakneen, Sergei; McCarroll, Steven; Jun, Goo; Ding, Li; Koh, Chong Lek; Ren, Bing; Flicek, Paul; Chen, Ken; Gerstein, Mark B.; Kwok, Pui-Yan; Lansdorp, Peter M.; Marth, Gabor T.; Sebat, Jonathan; Shi, Xinghua; Bashir, Ali; Ye, Kai; Devine, Scott E.; Talkowski, Michael E.; Mills, Ryan E.; Marschall, Tobias; Korbel, Jan O.; Eichler, Evan E.; Lee, Charles Share Save
Comment on A Database of Human Immune Receptor Alleles Recovered from Population Sequencing Data Watson, Corey T.; Matsen, Frederick A.; Jackson, Katherine J. L.; Bashir, Ali; Smith, Melissa Laird; Glanville, Jacob; Breden, Felix; Kleinstein, Steven H.; Collins, Andrew M.; Busse, Christian E. Share Save
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How do students react to analyzing their own genomes in a whole-genome sequencing course?: outcomes of a longitudinal cohort study Sanderson, Saskia C.; Linderman, Michael D.; Zinberg, Randi; Bashir, Ali; Kasarskis, Andrew; Zweig, Micol; Suckiel, Sabrina; Shah, Hardik; Mahajan, Milind; Diaz, George A.; Schadt, Eric E. Share Save
Whole-Genome Sequencing Identifies Emergence of a Quinolone Resistance Mutation in a Case of Stenotrophomonas maltophilia Bacteremia Pak, Theodore R.; Altman, Deena R.; Attie, Oliver; Sebra, Robert; Hamula, Camille L.; Lewis, Martha; Deikus, Gintaras; Newman, Leah C.; Fang, Gang; Hand, Jonathan; Patel, Gopi; Wallach, Fran; Schadt, Eric E.; Huprikar, Shirish; van Bakel, Harm; Kasarskis, Andrew; Bashir, Ali Share Save
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Assembly and diploid architecture of an individual human genome via single-molecule technologies Pendleton, Matthew; Sebra, Robert; Pang, Andy Wing Chun; Ummat, Ajay; Franzen, Oscar; Rausch, Tobias; Stuetz, Adrian M.; Stedman, William; Anantharaman, Thomas; Hastie, Alex; Dai, Heng; Fritz, Markus Hsi-Yang; Cao, Han; Cohainl, Ariella; Deikusl, Gintaras; Durrett, Russell E.; Blanchard, Scott C.; Altman, Roger; Chin, Chen-Shan; Guo, Yan; Paxinos, Ellen E.; Korbe, Jan O.; Darnell, Robert B.; McCombiemii, W. Richard; Kwok, Pui-Yan; Mason, Christopher E.; Schadt, Eric E.; Bashirl, Ali Share Save
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