Not logged in Comparative analysis of RNA expression identifies effective targeted drug in myoepithelial carcinoma Vasquez, Yvonne A.; Sanders, Lauren; Beale, Holly C.; Lyle, A. Geoffrey; Kephart, Ellen T.; Learned, Katrina; Peralez, Jennifer; Li, Amy; Huang, Min; Pyke-Grimm, Kimberly A.; Tan, Serena Y.; Salama, Sofie R.; Haussler, David; Bjork, Isabel; Vaske, Olena M.; Spunt, Sheri L. Share Save
Comparative analysis of RNA expression in a single institution cohort of pediatric cancer patients Vasquez, Yvonne A.; Beale, Holly C.; Sanders, Lauren; Lyle, A. Geoffrey; Kephart, Ellen T.; Learned, Katrina; Thompson, Drew; Peralez, Jennifer; Li, Amy; Huang, Min; Pyke-Grimm, Kimberly A.; Salama, Sofie R.; Haussler, David; Bjork, Isabel; Sheri, L. Spunt Share Save
BIOPROCESSING OF VIABLE SURGICAL PEDIATRIC BRAIN TUMOR SPECIMENS FOR GENOME-GUIDED PERSONALIZED DRUG TESTING Nasajpour, Emon; Tran, Caitlynn; Garcia, Cesar; Xing, Lulu; Lyle, Geoff; Guinle, Maria Isabel Barros; Bagley, Bryce; Mahaney, Kelly; Vogel, Hannes; Learned, Katrina; Vaske, Olena; Grant, Gerald; Prolo, Laura; Maher, Cormac; Petritsch, Claudia Share Save
BIOPROCESSING OF SURGICAL PEDIATRIC BRAIN TUMOR SPECIMENS FOR GENOME-GUIDED PERSONALIZED DRUG TESTING Nasajpour, Emon; Tran, Caitlynn; Garcia, Cesar; Lyle, Geoff; Guinle, Maria I. Barros; Bagley, Bryce A.; Lancero, Hope; Gibson, Eden E.; Schouten, Troy; Mahaney, Kelly; Vogel, Hannes; Learned, Katrina; Vaske, Olena; Grant, Gerald A.; Prolo, Laura M.; Petritsch, Claudia K. Share Save
Machine learning multi-omics analysis reveals cancer driver dysregulation in pan-cancer cell lines compared to primary tumors Sanders, Lauren M.; Chandra, Rahul; Zebarjadi, Navid; Beale, Holly C.; Lyle, A. Geoffrey; Rodriguez, Analiz; Kephart, Ellen Towle; Pfeil, Jacob; Cheney, Allison; Learned, Katrina; Currie, Rob; Gitlin, Leonid; Vengerov, David; Haussler, David; Salama, Sofie R.; Vaske, Olena M. Share Save
A Functional Precision Medicine Pipeline Combines Comparative Transcriptomics and Tumor Organoid Modeling to Identify Bespoke Treatment Strategies for Glioblastoma Reed, Megan R.; Lyle, A. Geoffrey; De Loose, Annick; Maddukuri, Leena; Learned, Katrina; Beale, Holly C.; Kephart, Ellen T.; Cheney, Allison; van den Bout, Anouk; Lee, Madison P.; Hundley, Kelsey N.; Smith, Ashley M.; DesRochers, Teresa M.; Vibat, Cecile Rose T.; Gokden, Murat; Salama, Sofie; Wardell, Christopher P.; Eoff, Robert L.; Vaske, Olena M.; Rodriguez, Analiz Share Save
The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets Beale, Holly C.; Roger, Jacquelyn M.; Cattle, Matthew A.; McKay, Liam T.; Thompson, Drew K. A.; Learned, Katrina; Lyle, A. Geoffrey; Kephart, Ellen T.; Currie, Rob; Du Linh Lam; Sanders, Lauren; Pfeil, Jacob; Vivian, John; Bjork, Isabel; Salama, Sofie R.; Haussler, David; Vaske, Olena M. Share Save
Identification of a differentiation stall in epithelial mesenchymal transition in histone H3-mutant diffuse midline glioma Sanders, Lauren M.; Cheney, Allison; Seninge, Lucas; van den Bout, Anouk; Chen, Marissa; Beale, Holly C.; Kephart, Ellen Towle; Pfeil, Jacob; Learned, Katrina; Lyle, A. Geoffrey; Bjork, Isabel; Haussler, David; Salama, Sofie R.; Vaske, Olena M. Share Save
Determining accuracy of RNA sequencing data for gene expression profiling of single samples Beale, Holly C.; Roger, Jacquelyn M.; Cattle, Matthew A.; McKay, Liam T.; Learned, Katrina; Lyle, Geoff; Kephart, Ellen T.; Currie, Rob; Du Linh Lam; Sanders, Lauren; Pfeil, Jacob; Vivian, John; Bjork, Isabel; Salama, Sofie R.; Haussler, David; Vaske, Olena M. Share Save
SHARED LONG NON-CODING RNA DYSREGULATION IN HISTONE H3 K27M GLIOMAS AND PF-A EPENDYMOMAS Sanders, Lauren; Cheney, Allison; Field, Andrew; Beale, Holly; Kephart, Ellen; Learned, Katrina; Bjork, Isabel; Durbin, Ann; Lyle, Geoff; Pfeil, Jacob; Salama, Sofie; Haussler, David; Vaske, Olena Share Save
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The UCSC Genome Browser database: 2016 update Speir, Matthew L.; Zweig, Ann S.; Rosenbloom, Kate R.; Raney, Brian J.; Paten, Benedict; Nejad, Parisa; Lee, Brian T.; Learned, Katrina; Karolchik, Donna; Hinrichs, Angie S.; Heitner, Steve; Harte, Rachel A.; Haeussler, Maximilian; Guruvadoo, Luvina; Fujita, Pauline A.; Eisenhart, Christopher; Diekhans, Mark; Clawson, Hiram; Casper, Jonathan; Barber, Galt P.; Haussler, David; Kuhn, Robert M.; Kent, W. James Share Save
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The UCSC Genome Browser database: 2015 update Rosenbloom, Kate R.; Armstrong, Joel; Barber, Galt P.; Casper, Jonathan; Clawson, Hiram; Diekhans, Mark; Dreszer, Timothy R.; Fujita, Pauline A.; Guruvadoo, Luvina; Haeussler, Maximilian; Harte, Rachel A.; Heitner, Steve; Hickey, Glenn; Hinrichs, Angie S.; Hubley, Robert; Karolchik, Donna; Learned, Katrina; Lee, Brian T.; Li, Chin H.; Miga, Karen H.; Nguyen, Ngan; Paten, Benedict; Raney, Brian J.; Smit, Arian F. A.; Speir, Matthew L.; Zweig, Ann S.; Haussler, David; Kuhn, Robert M.; Kent, W. James Share Save
The UCSC Genome Browser database: 2014 update Karolchik, Donna; Barber, Galt P.; Casper, Jonathan; Clawson, Hiram; Cline, Melissa S.; Diekhans, Mark; Dreszer, Timothy R.; Fujita, Pauline A.; Guruvadoo, Luvina; Haeussler, Maximilian; Harte, Rachel A.; Heitner, Steve; Hinrichs, Angie S.; Learned, Katrina; Lee, Brian T.; Li, Chin H.; Raney, Brian J.; Rhead, Brooke; Rosenbloom, Kate R.; Sloan, Cricket A.; Speir, Matthew L.; Zweig, Ann S.; Haussler, David; Kuhn, Robert M.; Kent, W. James Share Save
ENCODE Data in the UCSC Genome Browser: year 5 update Rosenbloom, Kate R.; Sloan, Cricket A.; Malladi, Venkat S.; Dreszer, Timothy R.; Learned, Katrina; Kirkup, Vanessa M.; Wong, Matthew C.; Maddren, Morgan; Fang, Ruihua; Heitner, Steven G.; Lee, Brian T.; Barber, Galt P.; Harte, Rachel A.; Diekhans, Mark; Long, Jeffrey C.; Wilder, Steven P.; Zweig, Ann S.; Karolchik, Donna; Kuhn, Robert M.; Haussler, David; Kent, W. James Share Save
The UCSC Genome Browser database: extensions and updates 2013 Meyer, Laurence R.; Zweig, Ann S.; Hinrichs, Angie S.; Karolchik, Donna; Kuhn, Robert M.; Wong, Matthew; Sloan, Cricket A.; Rosenbloom, Kate R.; Roe, Greg; Rhead, Brooke; Raney, Brian J.; Pohl, Andy; Malladi, Venkat S.; Li, Chin H.; Lee, Brian T.; Learned, Katrina; Kirkup, Vanessa; Hsu, Fan; Heitner, Steve; Harte, Rachel A.; Haeussler, Maximilian; Guruvadoo, Luvina; Goldman, Mary; Giardine, Belinda M.; Fujita, Pauline A.; Dreszer, Timothy R.; Diekhans, Mark; Cline, Melissa S.; Clawson, Hiram; Barber, Galt P.; Haussler, David; Kent, W. James Share Save
An encyclopedia of mouse DNA elements (Mouse ENCODE) Stamatoyannopoulos, John A.; Snyder, Michael; Hardison, Ross; Ren, Bing; Gingeras, Thomas; Gilbert, David M.; Groudine, Mark; Bender, Michael; Kaul, Rajinder; Canfield, Theresa; Giste, Erica; Johnson, Audra; Zhang, Mia; Balasundaram, Gayathri; Byron, Rachel; Roach, Vaughan; Sabo, Peter J.; Sandstrom, Richard; Stehling, A. Sandra; Thurman, Robert E.; Weissman, Sherman M.; Cayting, Philip; Hariharan, Manoj; Lian, Jin; Cheng, Yong; Landt, Stephen G.; Ma, Zhihai; Wold, Barbara J.; Dekker, Job; Crawford, Gregory E.; Keller, Cheryl A.; Wu, Weisheng; Morrissey, Christopher; Kumar, Swathi A.; Mishra, Tejaswini; Jain, Deepti; Byrska-Bishop, Marta; Blankenberg, Daniel; Lajoie, Bryan R.; Jain, Gaurav; Sanyal, Amartya; Chen, Kaun-Bei; Denas, Olgert; Taylor, James; Blobel, Gerd A.; Weiss, Mitchell J.; Pimkin, Max; Deng, Wulan; Marinov, Georgi K.; Williams, Brian A.; Fisher-Aylor, Katherine I.; Desalvo, Gilberto; Kiralusha, Anthony; Trout, Diane; Amrhein, Henry; Mortazavi, Ali; Edsall, Lee; McCleary, David; Kuan, Samantha; Shen, Yin; Yue, Feng; Ye, Zhen; Davis, Carrie A.; Zaleski, Chris; Jha, Sonali; Xue, Chenghai; Dobin, Alex; Lin, Wei; Fastuca, Meagan; Wang, Huaien; Guigo, Roderic; Djebali, Sarah; Lagarde, Julien; Ryba, Tyrone; Sasaki, Takayo; Malladi, Venkat S.; Cline, Melissa S.; Kirkup, Vanessa M.; Learned, Katrina; Rosenbloom, Kate R.; Kent, W. James; Feingold, Elise A.; Good, Peter J.; Pazin, Michael; Lowdon, Rebecca F.; Adams, Leslie B. Share Save
The UCSC Genome Browser database: extensions and updates 2011 Dreszer, Timothy R.; Karolchik, Donna; Zweig, Ann S.; Hinrichs, Angie S.; Raney, Brian J.; Kuhn, Robert M.; Meyer, Laurence R.; Wong, Mathew; Sloan, Cricket A.; Rosenbloom, Kate R.; Roe, Greg; Rhead, Brooke; Pohl, Andy; Malladi, Venkat S.; Li, Chin H.; Learned, Katrina; Kirkup, Vanessa; Hsu, Fan; Harte, Rachel A.; Guruvadoo, Luvina; Goldman, Mary; Giardine, Belinda M.; Fujita, Pauline A.; Diekhans, Mark; Cline, Melissa S.; Clawson, Hiram; Barber, Galt P.; Haussler, David; Kent, W. James Share Save
ENCODE whole-genome data in the UCSC Genome Browser: update 2012 Rosenbloom, Kate R.; Dreszer, Timothy R.; Long, Jeffrey C.; Malladi, Venkat S.; Sloan, Cricket A.; Raney, Brian J.; Cline, Melissa S.; Karolchik, Donna; Barber, Galt P.; Clawson, Hiram; Diekhans, Mark; Fujita, Pauline A.; Goldman, Mary; Gravell, Robert C.; Harte, Rachel A.; Hinrichs, Angie S.; Kirkup, Vanessa M.; Kuhn, Robert M.; Learned, Katrina; Maddren, Morgan; Meyer, Laurence R.; Pohl, Andy; Rhead, Brooke; Wong, Matthew C.; Zweig, Ann S.; Haussler, David; Kent, W. James Share Save
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