Sara J. Cooper, Ph.D. - Publications

Affiliations: 
Stanford University, Palo Alto, CA 

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
2020 Ramaker RC, Hardigan AA, Goh ST, Partridge EC, Wold B, Cooper SJ, Myers RM. Dissecting the regulatory activity and sequence content of loci with exceptional numbers of transcription factor associations. Genome Research. PMID 32616518 DOI: 10.1101/gr.260463.119  0.72
2018 Koch H, Starenki D, Cooper SJ, Myers RM, Li Q. powerTCR: A model-based approach to comparative analysis of the clone size distribution of the T cell receptor repertoire. Plos Computational Biology. 14: e1006571. PMID 30485278 DOI: 10.1371/journal.pcbi.1006571  0.72
2017 Ramaker RC, Gordon E, Cooper SJ. R2DGC: Threshold-free peak alignment and identification for 2D gas chromatography mass spectrometry in R. Bioinformatics (Oxford, England). PMID 29280991 DOI: 10.1093/bioinformatics/btx825  0.72
2017 Boyd NH, Walker K, Fried J, Hackney JR, McDonald PC, Benavides GA, Spina R, Audia A, Scott SE, Libby CJ, Tran AN, Bevensee MO, Griguer C, Nozell S, Gillespie GY, ... ... Cooper SJ, et al. Addition of carbonic anhydrase 9 inhibitor SLC-0111 to temozolomide treatment delays glioblastoma growth in vivo. Jci Insight. 2. PMID 29263302 DOI: 10.1172/jci.insight.92928  0.52
2017 Ramaker RC, Savic D, Hardigan AA, Newberry K, Cooper GM, Myers RM, Cooper SJ. A genome-wide interactome of DNA-associated proteins in the human liver. Genome Research. PMID 29021291 DOI: 10.1101/gr.222083.117  0.72
2017 Ramaker RC, Bowling KM, Lasseigne BN, Hagenauer MH, Hardigan AA, Davis NS, Gertz J, Cartagena PM, Walsh DM, Vawter MP, Jones EG, Schatzberg AF, Barchas JD, Watson SJ, Bunney BG, ... ... Cooper SJ, et al. Post-mortem molecular profiling of three psychiatric disorders. Genome Medicine. 9: 72. PMID 28754123 DOI: 10.1186/s13073-017-0458-5  0.72
2017 Ramaker RC, Lasseigne BN, Hardigan AA, Palacio L, Gunther DS, Myers RM, Cooper SJ. RNA sequencing-based cell proliferation analysis across 19 cancers identifies a subset of proliferation-informative cancers with a common survival signature. Oncotarget. PMID 28454104 DOI: 10.18632/oncotarget.16961  0.72
2017 Kirby MK, Ramaker RC, Roberts BS, Lasseigne BN, Gunther DS, Burwell TC, Davis NS, Gulzar ZG, Absher DM, Cooper SJ, Brooks JD, Myers RM. Genome-wide DNA methylation measurements in prostate tissues uncovers novel prostate cancer diagnostic biomarkers and transcription factor binding patterns. Bmc Cancer. 17: 273. PMID 28412973 DOI: 10.1186/s12885-017-3252-2  0.72
2017 Alonso A, Lasseigne BN, Williams K, Nielsen J, Ramaker RC, Hardigan AA, Johnston B, Roberts BS, Cooper SJ, Marsal S, Myers RM. aRNApipe: A balanced, efficient and distributed pipeline for processing RNA-seq data in high performance computing environments. Bioinformatics (Oxford, England). PMID 28108448 DOI: 10.1093/bioinformatics/btx023  0.72
2016 McDaniel JM, Varley KE, Gertz J, Savic DS, Roberts BS, Bailey SK, Shevde LA, Ramaker RC, Lasseigne BN, Kirby MK, Newberry KM, Partridge EC, Jones AL, Boone B, Levy SE, ... ... Cooper SJ, et al. Genomic regulation of invasion by STAT3 in triple negative breast cancer. Oncotarget. PMID 28030809 DOI: 10.18632/oncotarget.14153  0.72
2016 Ghatalia P, Yang ES, Lasseigne BN, Ramaker RC, Cooper SJ, Chen D, Sudarshan S, Wei S, Guru AS, Zhao A, Cooper T, Della Manna DL, Naik G, Myers RM, Sonpavde G. Kinase Gene Expression Profiling of Metastatic Clear Cell Renal Cell Carcinoma Tissue Identifies Potential New Therapeutic Targets. Plos One. 11: e0160924. PMID 27574806 DOI: 10.1371/journal.pone.0160924  0.72
2016 Savic D, Ramaker RC, Roberts BS, Dean EC, Burwell TC, Meadows SK, Cooper SJ, Garabedian MJ, Gertz J, Myers RM. Distinct gene regulatory programs define the inhibitory effects of liver X receptors and PPARG on cancer cell proliferation. Genome Medicine. 8: 74. PMID 27401066 DOI: 10.1186/s13073-016-0328-6  0.72
2016 Kirby MK, Ramaker RC, Gertz J, Davis NS, Johnston BE, Oliver PG, Sexton KC, Greeno EW, Christein JD, Heslin MJ, Posey JA, Grizzle WE, Vickers SM, Buchsbaum DJ, Cooper SJ, et al. RNA sequencing of pancreatic adenocarcinoma tumors yields novel expression patterns associated with long-term survival and reveals a role for ANGPTL4. Molecular Oncology. PMID 27282075 DOI: 10.1016/j.molonc.2016.05.004  0.72
2007 Cooper SJ, Trinklein ND, Nguyen L, Myers RM. Serum response factor binding sites differ in three human cell types. Genome Research. 17: 136-44. PMID 17200232 DOI: 10.1101/gr.5875007  0.72
2006 Cooper SJ, Trinklein ND, Anton ED, Nguyen L, Myers RM. Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome. Genome Research. 16: 1-10. PMID 16344566 DOI: 10.1101/gr.4222606  0.72
2005 Kim TH, Barrera LO, Qu C, Van Calcar S, Trinklein ND, Cooper SJ, Luna RM, Glass CK, Rosenfeld MG, Myers RM, Ren B. Direct isolation and identification of promoters in the human genome. Genome Research. 15: 830-9. PMID 15899964 DOI: 10.1101/gr.3430605  0.72
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