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Ryne C. Ramaker - Publications

Affiliations: 
University of Alabama, Birmingham, Birmingham, AL, United States 
Area:
Genomics, Computational Biology, Human Genetics, Cancer Genetics
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23 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
2022 Wang J, Thomas HR, Chen Y, Percival SM, Waldrep SC, Ramaker RC, Thompson RG, Cooper SJ, Chong Z, Parant JM. Reduced sister chromatid cohesion acts as a tumor penetrance modifier. Plos Genetics. 18: e1010341. PMID 35994499 DOI: 10.1371/journal.pgen.1010341  0.626
2021 Ramaker RC, Hardigan AA, Gordon ER, Wright CA, Myers RM, Cooper SJ. Pooled CRISPR screening in pancreatic cancer cells implicates co-repressor complexes as a cause of multiple drug resistance via regulation of epithelial-to-mesenchymal transition. Bmc Cancer. 21: 632. PMID 34049503 DOI: 10.1186/s12885-021-08388-1  0.711
2020 Partridge EC, Chhetri SB, Prokop JW, Ramaker RC, Jansen CS, Goh ST, Mackiewicz M, Newberry KM, Brandsmeier LA, Meadows SK, Messer CL, Hardigan AA, Coppola CJ, Dean EC, Jiang S, et al. Occupancy maps of 208 chromatin-associated proteins in one human cell type. Nature. 583: 720-728. PMID 32728244 DOI: 10.1038/S41586-020-2023-4  0.632
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  0.738
2019 Hardigan AA, Roberts BS, Moore DE, Ramaker RC, Jones AL, Myers RM. CRISPR/Cas9-targeted removal of unwanted sequences from small-RNA sequencing libraries. Nucleic Acids Research. PMID 31165880 DOI: 10.1093/Nar/Gkz425  0.597
2019 Ramaker RC, Hardigan AA, Gordon ER, Myers RM, Cooper SJ. Abstract 5135: Genome-wide CRISPR-based screening reveals ABCG2 as a novel drug resistance gene in pancreatic cancer Cancer Research. DOI: 10.1158/1538-7445.Sabcs18-5135  0.729
2018 Hiatt SM, Neu MB, Ramaker RC, Hardigan AA, Prokop JW, Hancarova M, Prchalova D, Havlovicova M, Prchal J, Stranecky V, Yim DKC, Powis Z, Keren B, Nava C, Mignot C, et al. De novo mutations in the GTP/GDP-binding region of RALA, a RAS-like small GTPase, cause intellectual disability and developmental delay. Plos Genetics. 14: e1007671. PMID 30500825 DOI: 10.1371/Journal.Pgen.1007671  0.571
2018 Myers RM, Kimberly RP, Roberts BS, Hardigan AA, Moore DE, Jones AL, Fitz-Gerald MB, Cooper GM, Wilcox CM, Ramaker RC. Discovery and validation of circulating biomarkers of colorectal adenoma by high-depth small RNA sequencing. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 29490987 DOI: 10.1158/1078-0432.Ccr-17-1960  0.609
2018 Prokop JW, Yeo NC, Ottmann C, Chhetri SB, Florus KL, Ross EJ, Sosonkina N, Link BA, Freedman BI, Coppola CJ, McDermott-Roe C, Leysen S, Milroy LG, Meijer FA, Geurts AM, ... ... Ramaker R, et al. Characterization of Coding/Noncoding Variants forin Patients with CKD. Journal of the American Society of Nephrology : Jasn. PMID 29476007 DOI: 10.1681/Asn.2017080856  0.34
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  0.61
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  0.733
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, et al. Post-mortem molecular profiling of three psychiatric disorders. Genome Medicine. 9: 72. PMID 28754123 DOI: 10.1186/S13073-017-0458-5  0.708
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  0.758
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  0.727
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  0.721
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, et al. Genomic regulation of invasion by STAT3 in triple negative breast cancer. Oncotarget. PMID 28030809 DOI: 10.18632/Oncotarget.14153  0.747
2016 Cohen JL, Ata AE, Jackson NL, Rahn EJ, Ramaker RC, Cooper S, Kerman IA, Clinton SM. Differential stress induced c-Fos expression and identification of region-specific miRNA-mRNA networks in the dorsal raphe and amygdala of high-responder/low-responder rats. Behavioural Brain Research. PMID 27865919 DOI: 10.1016/J.Bbr.2016.11.015  0.609
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  0.739
2016 Coppola CJ, Ramaker R, Mendenhall EM. Identification and Function of Enhancers in the Human Genome. Human Molecular Genetics. PMID 27402881 DOI: 10.1093/Hmg/Ddw216  0.363
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  0.729
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  0.727
2012 Zimmerman JW, Pennison MJ, Brezovich I, Yi N, Yang CT, Ramaker R, Absher D, Myers RM, Kuster N, Costa FP, Barbault A, Pasche B. Cancer cell proliferation is inhibited by specific modulation frequencies. British Journal of Cancer. 106: 307-13. PMID 22134506 DOI: 10.1038/Bjc.2011.523  0.596
2012 Zimmerman JW, Pennison MJ, Brezovich I, Yi N, Yang CT, Ramaker R, Absher D, Myers RM, Kuster N, Costa FP, Barbault A, Pasche B. Abstract 916A: Cancer cell proliferation is inhibited by specific modulation frequencies Cancer Research. 72: 5612-5612. DOI: 10.1158/1538-7445.Am2012-916A  0.621
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