GalenGaoMD

PubMed

• The Immune Landscape of Cancer.
  Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, Porta-Pardo E, Gao GF, Plaisier CL, Eddy JA, Ziv E, Culhane AC, Paull EO, Sivakumar IKA, Gentles AJ, Ma...> ;Immunity.
• Correction: Mechanistic insights into cancer cell killing through interaction of phosphodiesterase 3A and schlafen family member 12.
  Xiaoyun Wu, Gavin R Schnitzler, Galen F Gao, Brett Diamond, Andrew R Baker, Bethany Kaplan, Kaylyn Williamson, Lindsay Westlake, Selena Lorrey, Timothy A Lewis, Colin ...> ;The Journal of Biological Chemistry. 2020 Nov 27
• 14 citations
  Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway
  Jian Carrot-Zhang, Xiaotong Yao, Siddhartha Devarakonda, Aditya Deshpande, Jeffrey S. Damrauer, Tiago C. Silva, Christopher K. Wong, Hyo Young Choi, Ina Felau, A. Gord...> ;Cell Reports. 2021 Feb 2
• 5 citations
  Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway.
  Jian Carrot-Zhang, Xiaotong Yao, Siddhartha Devarakonda, Aditya Deshpande, Jeffrey S. Damrauer, Tiago C. Silva, Christopher K. Wong, Hyo Young Choi, Ina Felau, A. Gord...> ;Cell Reports. 2021 Feb 2
• 3 citations
  Tangent normalization for somatic copy-number inference in cancer genome analysis.
  Galen F Gao, Coyin Oh, Gordon Saksena, Davy Deng, Lindsay C Westlake, Barbara A Hill, Michael Reich, Steven E Schumacher, Ashton C Berger, Scott L Carter, Andrew D Che...> ;Bioinformatics. 2022 Oct 14
• Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines.
  Ellrott K, Bailey MH, Saksena G, Covington KR, Kandoth C, Stewart C, Hess J, Ma S, Chiotti KE, McLellan M, Sofia HJ, Hutter C, Getz G, Wheeler D, Ding L, MC3 Working G...> ;Cell systems.
• Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas.
  Schaub FX, Dhankani V, Berger AC, Trivedi M, Richardson AB, Shaw R, Zhao W, Zhang X, Ventura A, Liu Y, Ayer DE, Hurlin PJ, Cherniack AD, Eisenman RN, Bernard B, Grando...> ;Cell systems.
• Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas.
  Way GP, Sanchez-Vega F, La K, Armenia J, Chatila WK, Luna A, Sander C, Cherniack AD, Mina M, Ciriello G, Schultz N, Cancer Genome Atlas Research Network, Sanchez Y, Gr...> ;Cell reports.
• Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images.
  Saltz J, Gupta R, Hou L, Kurc T, Singh P, Nguyen V, Samaras D, Shroyer KR, Zhao T, Batiste R, Van Arnam J, Cancer Genome Atlas Research Network, Shmulevich I, Rao AUK,...> ;Cell reports.
• Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas.
  Campbell JD, Yau C, Bowlby R, Liu Y, Brennan K, Fan H, Taylor AM, Wang C, Walter V, Akbani R, Byers LA, Creighton CJ, Coarfa C, Shih J, Cherniack AD, Gevaert O, Prunel...> ;Cell reports.
• Integrated Genomic Analysis of the Ubiquitin Pathway across Cancer Types.
  Ge Z, Leighton JS, Wang Y, Peng X, Chen Z, Chen H, Sun Y, Yao F, Li J, Zhang H, Liu J, Shriver CD, Hu H, Cancer Genome Atlas Research Network, Piwnica-Worms H, Ma L, L...> ;Cell reports.
• Driver Fusions and Their Implications in the Development and Treatment of Human Cancers.
  Gao Q, Liang WW, Foltz SM, Mutharasu G, Jayasinghe RG, Cao S, Liao WW, Reynolds SM, Wyczalkowski MA, Yao L, Yu L, Sun SQ, Fusion Analysis Working Group, Cancer Genome ...> ;Cell reports.
• Molecular Characterization and Clinical Relevance of Metabolic Expression Subtypes in Human Cancers.
  Peng X, Chen Z, Farshidfar F, Xu X, Lorenzi PL, Wang Y, Cheng F, Tan L, Mojumdar K, Du D, Ge Z, Li J, Thomas GV, Birsoy K, Liu L, Zhang H, Zhao Z, Marchand C, Weinstei...> ;Cell reports.
• Systematic Analysis of Splice-Site-Creating Mutations in Cancer.
  Jayasinghe RG, Cao S, Gao Q, Wendl MC, Vo NS, Reynolds SM, Zhao Y, Climente-González H, Chai S, Wang F, Varghese R, Huang M, Liang WW, Wyczalkowski MA, Sengupta S, Li ...> ;Cell reports.
• Somatic Mutational Landscape of Splicing Factor Genes and Their Functional Consequences across 33 Cancer Types.
  Seiler M, Peng S, Agrawal AA, Palacino J, Teng T, Zhu P, Smith PG, Cancer Genome Atlas Research Network, Buonamici S, Yu L> ;Cell reports.
• Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context.
  Chiu HS, Somvanshi S, Patel E, Chen TW, Singh VP, Zorman B, Patil SL, Pan Y, Chatterjee SS, Cancer Genome Atlas Research Network, Sood AK, Gunaratne PH, Sumazin P> ;Cell reports.
• The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma.
  Ricketts CJ, De Cubas AA, Fan H, Smith CC, Lang M, Reznik E, Bowlby R, Gibb EA, Akbani R, Beroukhim R, Bottaro DP, Choueiri TK, Gibbs RA, Godwin AK, Haake S, Hakimi AA...> ;Cell reports.
• Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer.
  Hoadley KA, Yau C, Hinoue T, Wolf DM, Lazar AJ, Drill E, Shen R, Taylor AM, Cherniack AD, Thorsson V, Akbani R, Bowlby R, Wong CK, Wiznerowicz M, Sanchez-Vega F, Rober...> ;Cell.
• Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics.
  Ding L, Bailey MH, Porta-Pardo E, Thorsson V, Colaprico A, Bertrand D, Gibbs DL, Weerasinghe A, Huang KL, Tokheim C, Cortés-Ciriano I, Jayasinghe R, Chen F, Yu L, Sun ...> ;Cell.
• Oncogenic Signaling Pathways in The Cancer Genome Atlas.
  Sanchez-Vega F, Mina M, Armenia J, Chatila WK, Luna A, La KC, Dimitriadoy S, Liu DL, Kantheti HS, Saghafinia S, Chakravarty D, Daian F, Gao Q, Bailey MH, Liang WW, Fol...> ;Cell.
• Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation.
  Malta TM, Sokolov A, Gentles AJ, Burzykowski T, Poisson L, Weinstein JN, Kamińska B, Huelsken J, Omberg L, Gevaert O, Colaprico A, Czerwińska P, Mazurek S, Mishra L, H...> ;Cell.
• Pathogenic Germline Variants in 10,389 Adult Cancers.
  Huang KL, Mashl RJ, Wu Y, Ritter DI, Wang J, Oh C, Paczkowska M, Reynolds S, Wyczalkowski MA, Oak N, Scott AD, Krassowski M, Cherniack AD, Houlahan KE, Jayasinghe R, W...> ;Cell.
• Comprehensive Characterization of Cancer Driver Genes and Mutations.
  Bailey MH, Tokheim C, Porta-Pardo E, Sengupta S, Bertrand D, Weerasinghe A, Colaprico A, Wendl MC, Kim J, Reardon B, Ng PK, Jeong KJ, Cao S, Wang Z, Gao J, Gao Q, Wang...> ;Cell.
• A Pan-Cancer Analysis of Enhancer Expression in Nearly 9000 Patient Samples.
  Chen H, Li C, Peng X, Zhou Z, Weinstein JN, Cancer Genome Atlas Research Network, Liang H> ;Cell.
• An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics.
  Liu J, Lichtenberg T, Hoadley KA, Poisson LM, Lazar AJ, Cherniack AD, Kovatich AJ, Benz CC, Levine DA, Lee AV, Omberg L, Wolf DM, Shriver CD, Thorsson V, Cancer Genome...> ;Cell.
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