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Carlos L. Araya, Ph.D. - Publications

Affiliations: 
2010 University of Washington, Seattle, Seattle, WA 
Area:
Genetics, Molecular Biology, Bioinformatics Biology
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16 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Morgens DW, Wainberg M, Boyle EA, Ursu O, Araya CL, Tsui CK, Haney MS, Hess GT, Han K, Jeng EE, Li A, Snyder MP, Greenleaf WJ, Kundaje A, Bassik MC. Genome-scale measurement of off-target activity using Cas9 toxicity in high-throughput screens. Nature Communications. 8: 15178. PMID 28474669 DOI: 10.1038/Ncomms15178  0.423
2015 Araya CL, Cenik C, Reuter JA, Kiss G, Pande VS, Snyder MP, Greenleaf WJ. Identification of significantly mutated regions across cancer types highlights a rich landscape of functional molecular alterations. Nature Genetics. PMID 26691984 DOI: 10.1038/Ng.3471  0.704
2015 Araya CL, Kawli T, Kundaje A, Jiang L, Wu B, Vafeados D, Terrell R, Weissdepp P, Gevirtzman L, Mace D, Niu W, Boyle AP, Xie D, Ma L, Murray JI, et al. Corrigendum: Regulatory analysis of the C. elegans genome with spatiotemporal resolution. Nature. PMID 26560031 DOI: 10.1038/Nature16075  0.646
2015 Cenik C, Sarinay Cenik E, Byeon GW, Grubert F, Candille SI, Spacek D, Alsallakh B, Tilgner H, Araya CL, Tang H, Ricci E, Snyder MP. Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans. Genome Research. PMID 26297486 DOI: 10.1101/Gr.193342.115  0.623
2015 Araya CL, Cenik C, Reuter J, Snyder M, Greenleaf W. Abstract B2-42: Systematic dissection of multi-scale mutational hotspots across 21 cancer types reveals a rich landscape of functionally targeted oncogenic disruptions Cancer Research. 75. DOI: 10.1158/1538-7445.Compsysbio-B2-42  0.713
2014 Boyle AP, Araya CL, Brdlik C, Cayting P, Cheng C, Cheng Y, Gardner K, Hillier LW, Janette J, Jiang L, Kasper D, Kawli T, Kheradpour P, Kundaje A, Li JJ, et al. Comparative analysis of regulatory information and circuits across distant species. Nature. 512: 453-6. PMID 25164757 DOI: 10.1038/Nature13668  0.706
2014 Araya CL, Kawli T, Kundaje A, Jiang L, Wu B, Vafeados D, Terrell R, Weissdepp P, Gevirtzman L, Mace D, Niu W, Boyle AP, Xie D, Ma L, Murray JI, et al. Regulatory analysis of the C. elegans genome with spatiotemporal resolution. Nature. 512: 400-5. PMID 25164749 DOI: 10.1038/Nature13497  0.697
2014 Phanstiel DH, Boyle AP, Araya CL, Snyder MP. Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures. Bioinformatics (Oxford, England). 30: 2808-10. PMID 24903420 DOI: 10.1093/Bioinformatics/Btu379  0.703
2014 Buenrostro JD, Araya CL, Chircus LM, Layton CJ, Chang HY, Snyder MP, Greenleaf WJ. Quantitative analysis of RNA-protein interactions on a massively parallel array reveals biophysical and evolutionary landscapes. Nature Biotechnology. 32: 562-8. PMID 24727714 DOI: 10.1038/Nbt.2880  0.555
2014 Buenrostro JD, Chircus L, Araya CL, Layton C, Greenleaf WJ. Direct, High-Throughput Measurement of Quantitative RNA Affinity Landscapes Biophysical Journal. 106: 495a. DOI: 10.1016/J.Bpj.2013.11.2771  0.428
2012 Araya CL, Fowler DM, Chen W, Muniez I, Kelly JW, Fields S. A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein function. Proceedings of the National Academy of Sciences of the United States of America. 109: 16858-63. PMID 23035249 DOI: 10.1073/Pnas.1209751109  0.579
2011 McKinlay A, Araya CL, Fields S. Genome-Wide Analysis of Nascent Transcription in Saccharomyces cerevisiae. G3 (Bethesda, Md.). 1: 549-58. PMID 22384366 DOI: 10.1534/G3.111.000810  0.601
2011 Fowler DM, Araya CL, Gerard W, Fields S. Enrich: software for analysis of protein function by enrichment and depletion of variants. Bioinformatics (Oxford, England). 27: 3430-1. PMID 22006916 DOI: 10.1093/Bioinformatics/Btr577  0.61
2011 Araya CL, Fowler DM. Deep mutational scanning: assessing protein function on a massive scale. Trends in Biotechnology. 29: 435-42. PMID 21561674 DOI: 10.1016/J.Tibtech.2011.04.003  0.429
2010 Fowler DM, Araya CL, Fleishman SJ, Kellogg EH, Stephany JJ, Baker D, Fields S. High-resolution mapping of protein sequence-function relationships. Nature Methods. 7: 741-6. PMID 20711194 DOI: 10.1038/Nmeth.1492  0.603
2010 Araya CL, Payen C, Dunham MJ, Fields S. Whole-genome sequencing of a laboratory-evolved yeast strain. Bmc Genomics. 11: 88. PMID 20128923 DOI: 10.1186/1471-2164-11-88  0.559
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