| Year |
Citation |
Score |
| 2024 |
Rogers BB, Anderson AG, Lauzon SN, Davis MN, Hauser RM, Roberts SC, Rodriguez-Nunez I, Trausch-Lowther K, Barinaga EA, Hall PI, Knuesel MT, Taylor JW, Mackiewicz M, Roberts BS, Cooper SJ, et al. Neuronal MAPT expression is mediated by long-range interactions with cis-regulatory elements. American Journal of Human Genetics. PMID 38232730 DOI: 10.1016/j.ajhg.2023.12.015 |
0.766 |
|
| 2023 |
Wright CA, Gordon ER, Cooper SJ. Genomic analysis reveals HDAC1 regulates clinically relevant transcriptional programs in Pancreatic cancer. Bmc Cancer. 23: 1137. PMID 37996815 DOI: 10.1186/s12885-023-11645-0 |
0.31 |
|
| 2023 |
Allen PC, Roberts K, Rubio JE, Tiwari HK, Absher DM, Cooper SJ, Myers RM, Brown EE. Genome-wide DNA methylation analysis implicates enrichment of interferon pathway in African American patients with Systemic Lupus Erythematosus and European Americans with lupus nephritis. Journal of Autoimmunity. 139: 103089. PMID 37506491 DOI: 10.1016/j.jaut.2023.103089 |
0.555 |
|
| 2023 |
Wright CA, Taylor JW, Cochran M, Lawlor JMJ, Moyers BA, Amaral MD, Bonnstetter ZT, Carter P, Solomon V, Myers RM, Love MN, Geldmacher DS, Cooper SJ, Roberson ED, Cochran JN. Contributions of rare and common variation to early-onset and atypical dementia risk. Cold Spring Harbor Molecular Case Studies. PMID 37308299 DOI: 10.1101/mcs.a006271 |
0.741 |
|
| 2023 |
Rogers BB, Anderson AG, Lauzon SN, Davis MN, Hauser RM, Roberts SC, Rodriguez-Nunez I, Trausch-Lowther K, Barinaga EA, Taylor JW, Mackiewicz M, Roberts BS, Cooper SJ, Rizzardi LF, Myers RM, et al. expression is mediated by long-range interactions with -regulatory elements. Biorxiv : the Preprint Server For Biology. PMID 37090552 DOI: 10.1101/2023.03.07.531520 |
0.762 |
|
| 2023 |
Wright CA, Taylor JW, Cochran M, Lawlor JMJ, Moyers BA, Amaral MD, Bonnstetter ZT, Carter P, Solomon V, Myers RM, Love MN, Geldmacher DS, Cooper SJ, Roberson ED, Cochran JN. Contributions of rare and common variation to early-onset and atypical dementia risk. Medrxiv : the Preprint Server For Health Sciences. PMID 36798301 DOI: 10.1101/2023.02.06.23285383 |
0.741 |
|
| 2023 |
Gordon ER, Wright CA, James M, Cooper SJ. Transcriptomic and functional analysis of ANGPTL4 overexpression in pancreatic cancer nominates targets that reverse chemoresistance. Research Square. PMID 36747689 DOI: 10.21203/rs.3.rs-2444404/v1 |
0.323 |
|
| 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 |
0.77 |
|
| 2021 |
Rogers BB, Lauzon SN, Davis MN, Rizzardi LF, Cooper SJ, Myers RM, Cochran JN. Identification of cis-regulatory elements associated with MAPT expression in human induced pluripotent stem cell derived neural cells. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. 17: e058349. PMID 34971147 DOI: 10.1002/alz.058349 |
0.607 |
|
| 2021 |
Ross EJ, Gordon ER, Sothers H, Darji R, Baron O, Haithcock D, Prabhakarpandian B, Pant K, Myers RM, Cooper SJ, Cox NJ. Three dimensional modeling of biologically relevant fluid shear stress in human renal tubule cells mimics in vivo transcriptional profiles. Scientific Reports. 11: 14053. PMID 34234242 DOI: 10.1038/s41598-021-93570-5 |
0.581 |
|
| 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 |
0.758 |
|
| 2021 |
Libby CJ, Gc S, Benavides GA, Fisher JL, Williford SE, Zhang S, Tran AN, Gordon ER, Jones AB, Tuy K, Flavahan W, Gordillo J, Long A, Cooper SJ, Lasseigne BN, et al. A role for GLUT3 in glioblastoma cell invasion that is not recapitulated by GLUT1. Cell Adhesion & Migration. 15: 101-115. PMID 33843470 DOI: 10.1080/19336918.2021.1903684 |
0.684 |
|
| 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 |
0.781 |
|
| 2020 |
Doo DW, Meza-Perez S, Londoño AI, Goldsberry WN, Katre AA, Boone JD, Moore DJ, Hudson CT, Betella I, McCaw TR, Gangrade A, Bao R, Luke JJ, Yang ES, Birrer MJ, ... ... Cooper SJ, et al. Inhibition of the Wnt/β-catenin pathway enhances antitumor immunity in ovarian cancer. Therapeutic Advances in Medical Oncology. 12: 1758835920913798. PMID 32313567 DOI: 10.1177/1758835920913798 |
0.334 |
|
| 2020 |
Goldsberry WN, Meza-Perez S, Londoño AI, Katre AA, Mott BT, Roane BM, Goel N, Wall JA, Cooper SJ, Norian LA, Randall TD, Birrer MJ, Arend RC. Inhibiting WNT Ligand Production for Improved Immune Recognition in the Ovarian Tumor Microenvironment. Cancers. 12. PMID 32213921 DOI: 10.3390/Cancers12030766 |
0.329 |
|
| 2020 |
Goldsberry WN, Meza-Perez S, Katre AA, Londoño A, Mott BT, Arquiette JM, Randall TD, Cooper SJ, Norian LA, Arend RC. Abstract B77: PORCN inhibition prolongs survival, decreases tumor burden, and alters the immune microenvironment in ovarian cancer Clinical Cancer Research. 26. DOI: 10.1158/1557-3265.Ovca19-B77 |
0.356 |
|
| 2019 |
McCaw TR, Li M, Starenki D, Liu M, Cooper SJ, Arend RC, Forero A, Buchsbaum DJ, Randall TD. Histone deacetylase inhibition promotes intratumoral CD8 T-cell responses, sensitizing murine breast tumors to anti-PD1. Cancer Immunology, Immunotherapy : Cii. PMID 31720815 DOI: 10.1007/S00262-019-02430-9 |
0.324 |
|
| 2019 |
Boyd NH, Walker K, Ayokanmbi A, Gordon ER, Whetsel J, Smith CM, Sanchez RG, Lubin F, Chakraborty A, Tran AN, Herting C, Hambardzumyan D, Yancey Gillespie G, Hackney JR, Cooper SJ, et al. CHD7 is Suppressed in the Perinecrotic/Ischemic Microenvironment and is a Novel Regulator of Glioblastoma Angiogenesis. Stem Cells (Dayton, Ohio). PMID 30629778 DOI: 10.1002/Stem.2969 |
0.39 |
|
| 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 |
0.763 |
|
| 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 |
0.587 |
|
| 2018 |
McCaw TR, Li M, Starenki D, Cooper SJ, Liu M, Meza-Perez S, Arend RC, Buchsbaum DJ, Forero A, Randall TD. The expression of MHC class II molecules on murine breast tumors delays T-cell exhaustion, expands the T-cell repertoire, and slows tumor growth. Cancer Immunology, Immunotherapy : Cii. PMID 30334128 DOI: 10.1007/S00262-018-2262-5 |
0.307 |
|
| 2018 |
Arend RC, Londono AI, Montgomery AM, Smith HJ, Dobbin ZC, Katre AA, Martinez A, Yang ES, Alvarez RD, Huh WK, Bevis KS, Straughn JM, Estes JM, Novak L, Crossman DK, ... Cooper SJ, et al. Molecular Response to Neoadjuvant Chemotherapy in High-Grade Serous Ovarian Carcinoma. Molecular Cancer Research : McR. PMID 29523763 DOI: 10.1158/1541-7786.Mcr-17-0594 |
0.382 |
|
| 2018 |
Nhat Tran A, Walker K, Harrison DG, Chen W, Mobley J, Hocevar L, Hackney JR, Sedaka RS, Pollock JS, Goldberg MS, Hambardzumyan D, Cooper SJ, Gillespie Y, Hjelmeland AB. Reactive Species Balance via GTP Cyclohydrolase I Regulates Glioblastoma Growth and Tumor Initiating Cell Maintenance. Neuro-Oncology. PMID 29409010 DOI: 10.1093/Neuonc/Noy012 |
0.322 |
|
| 2018 |
Doo DW, Londono AI, Moore DJ, Meza-Perez S, Katre AA, McCaw TR, Smith HJ, Lin CY, Cooper SJ, Straughn JM, Buchsbaum DJ, Norian LA, Randall TD, Arend RC. Abstract 4710: The effect of Wnt inhibition combined with paclitaxel on tumor burden and CD8+ T cell infiltration in syngeneic murine models of ovarian cancer Cancer Research. 78: 4710-4710. DOI: 10.1158/1538-7445.Am2018-4710 |
0.327 |
|
| 2018 |
Boyd N, Ayokanmbi A, Walker K, Whetsel J, Gordillo J, Smith C, Gordon E, Herting C, Hambardzumyan D, Gillespie Y, Hackney J, Cooper S, Jiao K, Hjelmeland A. TMIC-08. CHD7 IS SUPPRESSED IN THE PERINECROTIC/ISCHEMIC MICROENVIRONMENT AND IS A NOVEL REGULATOR OF ANGIOGENESIS Neuro-Oncology. 20: vi257-vi257. DOI: 10.1093/Neuonc/Noy148.1068 |
0.377 |
|
| 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 |
0.745 |
|
| 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 |
0.325 |
|
| 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 |
0.774 |
|
| 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 |
0.728 |
|
| 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 |
0.769 |
|
| 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 |
0.742 |
|
| 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 |
0.741 |
|
| 2017 |
Yofe I, Soliman K, Chuartzman SG, Morgan B, Weill U, Yifrach E, Dick TP, Cooper SJ, Ejsing CS, Schuldiner M, Zalckvar E, Thoms S. Pex35 is a regulator of peroxisome abundance. Journal of Cell Science. PMID 28049721 DOI: 10.1242/Jcs.187914 |
0.304 |
|
| 2017 |
McCaw TR, Li M, Meza-Perez S, Buchsbaum DJ, Starenki D, Cooper S, Forero A, Randall TD. Abstract 643: Induced MHCII expression on breast cancer cells broadens the responding T cell repertoire, delays tumor-specific T cell exhaustion, and impairs tumor growth Cancer Research. 77: 643-643. DOI: 10.1158/1538-7445.Am2017-643 |
0.343 |
|
| 2017 |
Tran AN, Walker K, Harrison D, Chen W, Mobley J, Sedaka R, Pollock J, Darley-Usmar V, Cooper S, Yancey Gillespie G, Hackey JR, Hocevar L, Hjelmeland A. GTP Cyclohydrolase I in Tumor Initiating Cell Maintenance and Glioblastoma Growth: Functions and Mechanisms Free Radical Biology and Medicine. 112: 104. DOI: 10.1016/J.Freeradbiomed.2017.10.157 |
0.358 |
|
| 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 |
0.763 |
|
| 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 |
0.744 |
|
| 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 |
0.759 |
|
| 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 |
0.767 |
|
| 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 |
0.762 |
|
| 2016 |
Boone JD, Johnston BE, Cooper SJ, Straughn JM, Buchsbaum DJ, Arend RC. Transcriptional expression patterns of patient-derived tumorspheres predict outcomes in high-grade serous ovarian carcinoma. Journal of Clinical Oncology. 34: e23125-e23125. DOI: 10.1200/Jco.2016.34.15_Suppl.E23125 |
0.332 |
|
| 2015 |
Boone JD, Arend RC, Johnston BE, Cooper SJ, Gilchrist SA, Oelschlager DK, Grizzle WE, McGwin G, Gangrade A, Straughn JM, Buchsbaum DJ. Targeting the Wnt/β-catenin pathway in primary ovarian cancer with the porcupine inhibitor WNT974. Laboratory Investigation; a Journal of Technical Methods and Pathology. PMID 26658453 DOI: 10.1038/Labinvest.2015.150 |
0.344 |
|
| 2010 |
Cooper SJ, Finney GL, Brown SL, Nelson SK, Hesselberth J, MacCoss MJ, Fields S. High-throughput profiling of amino acids in strains of the Saccharomyces cerevisiae deletion collection. Genome Research. 20: 1288-96. PMID 20610602 DOI: 10.1101/Gr.105825.110 |
0.3 |
|
| 2007 |
Birney E, Stamatoyannopoulos JA, Dutta A, Guigó R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S, Koch CM, ... ... Cooper SJ, et al. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature. 447: 799-816. PMID 17571346 DOI: 10.1038/Nature05874 |
0.772 |
|
| 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 |
0.747 |
|
| 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 |
0.771 |
|
| 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 |
0.778 |
|
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