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S. Reynolds · SciRah

Researcher profile · Semantic Scholar

S. Reynolds

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S. Reynolds — researcher profile on SciRah

h-index: 31
Works: 53
Citations: 61K

Most-cited papers

Comprehensive Molecular Characterization of Human Colon and Rectal Cancer
Donna M. Matthew N. Kyle Huyen H. Jennifer A. Gerald Chr Muzny Bainbridge Chang Dinh Drummond Fowler Kovar, Donna M. Matthew N. Kyle Huyen H. Jennifer A. Gerald Chr Muzny Bainbridge Chang Dinh Drummond Fowler Kovar, D. Muzny, M. Bainbridge +334 more
2012Nature7,915 citations Open access
Semantic Scholar
Comprehensive molecular portraits of human breast tumors
Daniel C. Robert S. Michael D. Heather Joelle Joshua F. L Koboldt Fulton McLellan Schmidt Kalicki-Veizer McM, Daniel C. Robert S. Michael D. Heather Joelle Joshua F. L Koboldt Fulton McLellan Schmidt Kalicki-Veizer McM, D. Koboldt, R. Fulton +377 more
2012Nature7,527 citations Open access
Semantic Scholar
Comprehensive molecular characterization of gastric adenocarcinoma
A. Bass, V. Thorsson, I. Shmulevich, S. Reynolds +253 more
2014Nature6,145 citations Open access
Semantic Scholar
Integrated Genomic Characterization of Endometrial Carcinoma
G. Getz, S. Gabriel, K. Cibulskis, E. Lander +268 more
2013Nature5,491 citations Open access
Semantic Scholar
The Immune Landscape of Cancer
V. Thorsson, D. Gibbs, S. Brown, D. Wolf +496 more
2018Immunity4,928 citations Open access
Semantic Scholar
The molecular taxonomy of primary prostate cancer
A. Abeshouse, Jaeil Ahn, R. Akbani, A. Ally +308 more
2015Cell2,825 citations Open access
Semantic Scholar
Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas
D. Brat, R. Verhaak, K. Aldape, W. K. Alfred Yung +303 more
2015New England Journal of Medicine2,794 citations Open access
Semantic Scholar
Integrated Genomic Characterization of Papillary Thyroid Carcinoma
N. Agrawal, R. Akbani, B. Aksoy, A. Ally +239 more
2014Cell2,779 citations Open access
Semantic Scholar
Oncogenic Signaling Pathways in The Cancer Genome Atlas
F. Sánchez-Vega, M. Mina, J. Armenia, W. Chatila +496 more
2018Cell2,752 citations Open access
Semantic Scholar
Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma
A. Ally, M. Balasundaram, R. Carlsen, E. Chuah +232 more
2017Cell2,309 citations Open access
Semantic Scholar
Comprehensive Molecular Characterization of Urothelial Bladder Carcinoma
John N. Rehan Bradley M. Wenyi Roeland G. W. David Seth Weinstein Akbani Broom Wang Verhaak McConkey Lerne, John N. Rehan Bradley M. Wenyi Roeland G. W. David Weinstein Akbani Broom Wang Verhaak McConkey, J. Weinstein, R. Akbani +345 more
2014Nature2,115 citations Open access
Semantic Scholar
Comprehensive Characterization of Cancer Driver Genes and Mutations
M. Bailey, C. Tokheim, E. Porta-Pardo, Sohini Sengupta +496 more
2018Cell2,066 citations Open access
Semantic Scholar
Integrated genomic and molecular characterization of cervical cancer
R. Burk, Zi-Gui Chen, C. Saller, Katherine Tarvin +297 more
2017Nature1,275 citations Open access
Semantic Scholar
COMPREHENSIVE AND INTEGRATED GENOMIC CHARACTERIZATION OF ADULT SOFT TISSUE SARCOMAS
A. Abeshouse, C. Adebamowo, S. Adebamowo, R. Akbani +260 more
2017Cell950 citations Open access
Semantic Scholar
Pathogenic germline variants in 10,389 adult cancers
Kuan-Lin Huang, R. Mashl, Yi-Ge Wu, D. Ritter +43 more
2018Cell752 citations Open access
Semantic Scholar
Driver Fusions and Their Implications in the Development and Treatment of Human Cancers
Qing-Song Gao, Wen-Wei Liang, S. Foltz, Gnanavel Mutharasu +18 more
2018Cell Reports552 citations Open access
Semantic Scholar
The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution
O. Rozenblatt-Rosen, A. Regev, Philipp Oberdoerffer, T. Nawy +362 more
2020Cell514 citations Open access
Semantic Scholar
Integrated analyses identify a master microRNA regulatory network for the mesenchymal subtype in serous ovarian cancer
Da Yang, Yan Sun, Limei Hu, Hong Zheng +16 more
2013Cancer Cell394 citations Open access
Semantic Scholar
The Immune Landscape of Cancer.
V. Thorsson, D. Gibbs, S. Brown, D. Wolf +53 more
2019Immunity287 citations Open access
Semantic Scholar
Integrative Analysis Identifies Four Molecular and Clinical Subsets in Uveal Melanoma
A. G. Robertson, Juliann Shih, C. Yau, E. Gibb +166 more
2017Cancer Cell287 citations Open access
Semantic Scholar
Transmembrane Topology and Signal Peptide Prediction Using Dynamic Bayesian Networks
S. Reynolds, L. Käll, Michael Riffle, Jeff A. Bilmes +1 more
2008PLoS Comput. Biol.265 citations Open access
Semantic Scholar
Systematic Analysis of Splice-Site-Creating Mutations in Cancer
R. Jayasinghe, Song Cao, Qing-Song Gao, M. Wendl +22 more
2018Cell Reports230 citations Open access
Semantic Scholar
Before and After: A Comparison of Legacy and Harmonized TCGA Data at the Genomic Data Commons
G. Gao, J. Parker, S. Reynolds, T. Silva +33 more
2019Cell Systems124 citations Open access
Semantic Scholar
Causal mechanistic regulatory network for glioblastoma deciphered using systems genetics network analysis
C. Plaisier, S. O'Brien, B. Bernard, S. Reynolds +6 more
2016Cell Systems102 citations Open access
Semantic Scholar
MITI Minimum Information guidelines for highly multiplexed tissue images
D. Schapiro, C. Yapp, A. Sokolov, S. Reynolds +34 more
2021Nature Methods78 citations Open access
Semantic Scholar
The ISB Cancer Genomics Cloud: A Flexible Cloud-based Platform for Cancer Genomics Research
S. Reynolds, Michael Miller, P. Lee, Kalle Leinonen +15 more
2017Cancer Research60 citations Open access
Semantic Scholar
Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework
Gwênlyn Glusman, Peter W. Rose, A. Prlić, J. Dougherty +33 more
2017Genome Medicine59 citations Open access
Semantic Scholar
Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification
A. Klammer, S. Reynolds, Jeff A. Bilmes, M. MacCoss +1 more
2008Intelligent Systems in Molecular Biology58 citations Open access
Semantic Scholar
Independent and complementary methods for large-scale structural analysis of mammalian chromatin.
J. Dennis, Hua-Ying Fan, S. Reynolds, Guocheng Yuan +6 more
2007Genome Research46 citations Open access
Semantic Scholar
Recurrent tumor-specific regulation of alternative polyadenylation of cancer-related genes
Zhu-Yi Xue, R. Warren, E. Gibb, D. Macmillan +9 more
2018BMC Genomics34 citations Open access
Semantic Scholar
Discovery of driver non-coding splice-site-creating mutations in cancer
Song Cao, D. Zhou, C. Oh, R. Jayasinghe +12 more
2020Nature Communications28 citations Open access
Semantic Scholar
Learning a Weighted Sequence Model of the Nucleosome Core and Linker Yields More Accurate Predictions in Saccharomyces cerevisiae and Homo sapiens
S. Reynolds, Jeff A. Bilmes, William Stafford Noble
2010PLoS Comput. Biol.23 citations Open access
Semantic Scholar
Part-of-Speech Tagging using Virtual Evidence and Negative Training
S. Reynolds, Jeff A. Bilmes
2005Human Language Technology - The Baltic Perspectiv13 citations Open access
Semantic Scholar
Abstract 5359: Regulatory germline variants in 10,389 adult cancers
Kuan-Lin Huang, A. Weerasinghe, Yi-Ge Wu, Wen-Wei Liang +13 more
2018Molecular and Cellular Biology / Genetics7 citations
Semantic Scholar
Structure-based predictions broadly link transcription factor mutations to gene expression changes in cancers
J. Ashworth, B. Bernard, S. Reynolds, C. Plaisier +2 more
2014Nucleic Acids Research7 citations Open access
Semantic Scholar
On the Relationship between DNA Periodicity and Local Chromatin Structure
S. Reynolds, Jeff A. Bilmes, William Stafford Noble
2009Annual International Conference on Research in Computational Molecular Biology7 citations
Semantic Scholar
Pan-cancer analysis reveals complex tumor-specific alternative polyadenylation
Zhu-Yi Xue, R. Warren, E. Gibb, D. Macmillan +7 more
2017bioRxiv2 citations Open access
Semantic Scholar
Predicting Nucleosome Positioning Using Multiple Evidence Tracks
S. Reynolds, Z. Weng, Jeff A. Bilmes, William Stafford Noble
2010Annual International Conference on Research in Computational Molecular Biology1 citations
Semantic Scholar
Development of a highly sensitive ctDNA assay to map the evolution of metastatic breast cancer.
Henry Kaplan, Josiah T. Wagner, A. Dowdell, John T. Welle +16 more
2025Journal of Clinical Oncology0 citations Open access
Semantic Scholar
Peer Review #2 of "Machine learning analysis of TCGA cancer data (v0.1)"
Jose Liares-Blanco, Alejandro Pazos, C. Fernandez-Lozano, Jose Li ares-Blanco +467 more
20210 citations Open access
Semantic Scholar
71 WHOLE EXOME SEQUENCING OF INDIVIDUALS PRESENTING EXTREME PHENOTYPES OF HIGH AND LOW-RISK OF DEVELOPING TOBACCO-INDUCED LUNG ADENOCARCINOMA: RELEVANCE OF IMMUNE AND DNA-REPAIR RELATED PATHWAYS
R. Weerasinghe, B. Bapat, A. Dowdell, Shwetha Pindikuri +8 more
20200 citations
Semantic Scholar
72 Routine use of comprehensive genomic profiling to assess tumor mutational burden across a community health system
C. Bifulco, R. Weerasinghe, B. Bapat, A. Dowdell +10 more
20200 citations Open access
Semantic Scholar
Fusions Their in the of Human
Qing-Song Gao, Wen-Wei Liang, S. Foltz, Gnanavel Mutharasu +20 more
20180 citations
Semantic Scholar
Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework
Gwênlyn Glusman, Peter W. Rose, Andreas Prli, J. Dougherty +33 more
20170 citations
Semantic Scholar
Candidate mutations for early-onset lung cancer by family genome sequencing
Vangelis Simeonidis, J. Roach, M. Brunkow, Gwênlyn Glusman +7 more
20110 citations
Semantic Scholar
RF-ACE for uncovering nonlinear associations from heterogeneous cancer data
Timo Erkkilä, S. Reynolds, K. Torkkola, Jake Lin +14 more
20110 citations
Semantic Scholar
Integrated Views into Cancer Regulomes Reveal Regulatory Hot Spots
Timo Erkkilä, R. Kreisberg, S. Reynolds, V. Thorsson +13 more
20110 citations
Semantic Scholar
Howdah - A Flexible Pipeline Framework for Analyzing Genomic Data
Steven Lewis, S. Reynolds, Hector Rovera, Mike O'Leary +3 more
20102010 IEEE Second International Conference on Cloud Computing Technology and Science0 citations
Semantic Scholar
Segmenting protein and DNA sequences using dynamic Bayesian networks
S. Reynolds
20090 citations
Semantic Scholar
analysis of mammalian chromatin Independent and complementary methods for large-scale structural data
J. Dennis, Hua-Ying Fan, S. Reynolds, Guocheng Yuan +6 more
19680 citations
Semantic Scholar

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