Praveen Sethupathy, Ph.D. - Publications

Affiliations: 
2008 University of Pennsylvania, Philadelphia, PA, United States 
Area:
Bioinformatics Biology, Genetics, Computer Science

65 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
2023 Taylor HJ, Hung YH, Narisu N, Erdos MR, Kanke M, Yan T, Grenko CM, Swift AJ, Bonnycastle LL, Sethupathy P, Collins FS, Taylor DL. Human pancreatic islet microRNAs implicated in diabetes and related traits by large-scale genetic analysis. Proceedings of the National Academy of Sciences of the United States of America. 120: e2206797120. PMID 36757889 DOI: 10.1073/pnas.2206797120  0.348
2022 Francisco AB, Kanke M, Massa AP, Dinh TA, Sritharan R, Vakili K, Bardeesy N, Sethupathy P. Multiomic analysis of microRNA-mediated regulation reveals a proliferative axis involving miR-10b in fibrolamellar carcinoma. Jci Insight. 7. PMID 35482409 DOI: 10.1172/jci.insight.154743  0.323
2021 Que E, James KL, Coffey AR, Smallwood TL, Albright J, Huda MN, Pomp D, Sethupathy P, Bennett BJ. Genetic architecture modulates diet-induced hepatic mRNA and miRNA expression profiles in Diversity Outbred mice. Genetics. 218. PMID 34849860 DOI: 10.1093/genetics/iyab068  0.308
2021 O'Connor S, Murphy EA, Szwed SK, Kanke M, Marchildon F, Sethupathy P, Darnell RB, Cohen P. AGO HITS-CLIP reveals distinct miRNA regulation of white and brown adipose tissue identity. Genes & Development. PMID 33832988 DOI: 10.1101/gad.345447.120  0.317
2020 Hsiao K, Noble C, Pitman W, Yadav N, Kumar S, Keele GR, Terceros A, Kanke M, Conniff T, Cheleuitte-Nieves C, Tolwani R, Sethupathy P, Rajasethupathy P. A Thalamic Orphan Receptor Drives Variability in Short-Term Memory. Cell. PMID 32997977 DOI: 10.1016/j.cell.2020.09.011  0.493
2020 Que E, James KL, Coffey AR, Smallwood TL, Albright J, Huda MN, Pomp D, Sethupathy P, Bennett BJ. Genetic Architecture Modulates Diet Induced Hepatic mRNA and miRNA Expression Profiles in Diversity Outbred Mice. Genetics. PMID 32763908 DOI: 10.1534/genetics.120.303481  0.309
2020 Que E, James KL, Coffey AR, Smallwood TL, Albright J, Huda MN, Pomp D, Sethupathy P, Bennett BJ. Genetic Architecture Modulates Diet Induced Hepatic mRNA and miRNA Expression Profiles in Diversity Outbred Mice. Genetics. PMID 32763908 DOI: 10.1534/Genetics.120.303481  0.414
2020 Toyonaga T, Steinbach EC, Keith BP, Barrow JB, Schaner MR, Wolber EA, Beasley C, Huling J, Wang Y, Allbritton NL, Chaumont N, Sadiq TS, Koruda MJ, Jain A, Long MD, ... ... Sethupathy P, et al. Decreased Colonic Activin Receptor-Like Kinase 1 Disrupts Epithelial Barrier Integrity in Patients with Crohn's disease. Cellular and Molecular Gastroenterology and Hepatology. PMID 32561494 DOI: 10.1016/J.Jcmgh.2020.06.005  0.315
2020 Dinh TA, Sritharan R, Smith FD, Francisco AB, Ma RK, Bunaciu RP, Kanke M, Danko CG, Massa AP, Scott JD, Sethupathy P. Hotspots of Aberrant Enhancer Activity in Fibrolamellar Carcinoma Reveal Candidate Oncogenic Pathways and Therapeutic Vulnerabilities. Cell Reports. 31: 107509. PMID 32294439 DOI: 10.1016/J.Celrep.2020.03.073  0.306
2019 Singh AP, Hung YH, Shanahan MT, Kanke M, Bonfini A, Dame MK, Biraud M, Peck BCE, Oyesola OO, Freund JM, Cubitt RL, Curry EG, Gonzalez LM, Bewick GA, Tait-Wojno ED, ... ... Sethupathy P, et al. Enteroendocrine progenitor cell enriched miR-7 regulates intestinal epithelial proliferation in an Xiap-dependent manner. Cellular and Molecular Gastroenterology and Hepatology. PMID 31756561 DOI: 10.1016/J.Jcmgh.2019.11.001  0.404
2019 Beck R, Chandi M, Kanke M, Stýblo M, Sethupathy P. Arsenic is more potent than cadmium or manganese in disrupting the INS-1 beta cell microRNA landscape. Archives of Toxicology. PMID 31555879 DOI: 10.1007/S00204-019-02574-8  0.381
2019 Hung YH, Kanke M, Kurtz CL, Cubitt R, Bunaciu RP, Miao J, Zhou L, Graham JL, Hussain M, Havel PJ, Biddinger SB, White PJ, Sethupathy P. Acute suppression of insulin resistance-associated hepatic miR-29 in vivo improves glycemic control in adult mice. Physiological Genomics. PMID 31251698 DOI: 10.1152/Physiolgenomics.00037.2019  0.405
2019 Dinh TA, Jewell ML, Kanke M, Francisco A, Sritharan R, Turnham RE, Lee S, Kastenhuber ER, Wauthier E, Guy CD, Yeung RS, Lowe SW, Reid LM, Scott JD, Diehl AM, ... Sethupathy P, et al. MicroRNA-375 suppresses the growth and invasion of fibrolamellar carcinoma. Cellular and Molecular Gastroenterology and Hepatology. PMID 30763770 DOI: 10.1016/J.Jcmgh.2019.01.008  0.378
2019 Lawlor N, Márquez EJ, Orchard P, Narisu N, Shamim MS, Thibodeau A, Varshney A, Kursawe R, Erdos MR, Kanke M, Gu H, Pak E, Dutra A, Russell S, Li X, ... ... Sethupathy P, et al. Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function. Cell Reports. 26: 788-801.e6. PMID 30650367 DOI: 10.1016/J.Celrep.2018.12.083  0.342
2019 Coffey AR, Kanke M, Smallwood TL, Albright J, Pitman W, Gharaibeh RZ, Hua K, Gertz E, Biddinger SB, Temel RE, Pomp D, Sethupathy P, Bennett BJ. microRNA-146a association with the cardiometabolic disease risk factor TMAO. Physiological Genomics. PMID 30633643 DOI: 10.1152/Physiolgenomics.00079.2018  0.33
2019 SETHUPATHY P. 1708-P: Enteroendocrine Lineage Enriched microRNAs Regulate Intestinal Progenitor Cell Dynamics Diabetes. 68: 1708-P. DOI: 10.2337/Db19-1708-P  0.312
2018 Beck RF, Bommarito P, Douillet C, Kanke M, Del Razo LM, García-Vargas G, Fry RC, Sethupathy P, Styblo M. Circulating miRNAs associated with arsenic exposure. Environmental Science & Technology. PMID 30457847 DOI: 10.1021/Acs.Est.8B06457  0.402
2018 Allen RM, Zhao S, Ramirez Solano MA, Zhu W, Michell DL, Wang Y, Shyr Y, Sethupathy P, Linton MF, Graf GA, Sheng Q, Vickers KC. Bioinformatic analysis of endogenous and exogenous small RNAs on lipoproteins. Journal of Extracellular Vesicles. 7: 1506198. PMID 30128086 DOI: 10.1080/20013078.2018.1506198  0.365
2018 Bensen JT, Graff M, Young KL, Sethupathy P, Parker J, Pecot CV, Currin K, Haddad SA, Ruiz-Narváez EA, Haiman CA, Hong CC, Sucheston-Campbell LE, Zhu Q, Liu S, Yao S, et al. A survey of microRNA single nucleotide polymorphisms identifies novel breast cancer susceptibility loci in a case-control, population-based study of African-American women. Breast Cancer Research : Bcr. 20: 45. PMID 29871690 DOI: 10.1186/S13058-018-0964-4  0.389
2018 Hung YH, Sethupathy P. MicroRNAs in the Mammalian Gut Endocrine Lineage. Endocrinology. 159: 866-868. PMID 29579172 DOI: 10.1210/En.2017-03117  0.417
2017 Yan X, Wang Z, Westberg-Rasmussen S, Tarbier M, Rathjen T, Tattikota SG, Peck BCE, Kanke M, Oxvig C, Frystyk J, Starup-Linde J, Sethupathy P, Friedländer MR, Gregersen S, Poy MN. Differential impact of glucose administered intravenously and orally on circulating miR-375 levels in human subjects. The Journal of Clinical Endocrinology and Metabolism. PMID 28973164 DOI: 10.1210/Jc.2017-01365  0.394
2017 Coffey AR, Smallwood TL, Albright J, Hua K, Kanke M, Pomp D, Bennett BJ, Sethupathy P. Systems genetics identifies a co-regulated module of liver microRNAs associated with plasma LDL cholesterol in murine diet-induced dyslipidemia. Physiological Genomics. physiolgenomics.0005. PMID 28916633 DOI: 10.1152/Physiolgenomics.00050.2017  0.436
2017 Gomez JC, Dang H, Kanke M, Hagan RS, Mock JR, Kelada SNP, Sethupathy P, Doerschuk CM. Predicted effects of observed changes in the mRNA and microRNA transcriptome of lung neutrophils during S. pneumoniae pneumonia in mice. Scientific Reports. 7: 11258. PMID 28900269 DOI: 10.1038/S41598-017-11638-7  0.334
2017 Smith KN, Starmer J, Miller SC, Sethupathy P, Magnuson T. Long Noncoding RNA Moderates MicroRNA Activity to Maintain Self-Renewal in Embryonic Stem Cells. Stem Cell Reports. PMID 28579393 DOI: 10.1016/J.Stemcr.2017.05.005  0.379
2017 Dinh TA, Vitucci EC, Wauthier E, Graham RP, Pitman WA, Oikawa T, Chen M, Silva GO, Greene KG, Torbenson MS, Reid LM, Sethupathy P. Comprehensive analysis of The Cancer Genome Atlas reveals a unique gene and non-coding RNA signature of fibrolamellar carcinoma. Scientific Reports. 7: 44653. PMID 28304380 DOI: 10.1038/Srep44653  0.305
2017 Yamane D, Selitsky SR, Shimakami T, Li Y, Zhou M, Honda M, Sethupathy P, Lemon SM. Differential hepatitis C virus RNA target site selection and host factor activities of naturally occurring miR-122 3' variants. Nucleic Acids Research. PMID 28082397 DOI: 10.1093/Nar/Gkw1332  0.395
2017 Peck BC, Mah AT, Pitman WA, Ding S, Lund PK, Sethupathy P. Functional Transcriptomics in Diverse Intestinal Epithelial Cell Types Reveals Robust microRNA Sensitivity in Intestinal Stem Cells to Microbial Status. The Journal of Biological Chemistry. PMID 28053090 DOI: 10.1074/Jbc.M116.770099  0.432
2016 Kanke M, Baran-Gale J, Villanueva J, Sethupathy P. miRquant 2.0: an Expanded Tool for Accurate Annotation and Quantification of MicroRNAs and their isomiRs from Small RNA-Sequencing Data. Journal of Integrative Bioinformatics. 13: 307. PMID 28187421 DOI: 10.2390/Biecoll-Jib-2016-307  0.352
2016 Baran-Gale J, Purvis JE, Sethupathy P. An integrative transcriptomics approach identifies miR-503 as a candidate master regulator of the estrogen response in MCF-7 breast cancer cells. Rna (New York, N.Y.). PMID 27539783 DOI: 10.1261/Rna.056895.116  0.408
2016 Irani S, Pan X, Peck BC, Iqbal J, Sethupathy P, Hussain MM. MicroRNA-30c Mimic Mitigates Hypercholesterolemia and Atherosclerosis in Mice. The Journal of Biological Chemistry. PMID 27365390 DOI: 10.1074/Jbc.M116.728451  0.339
2016 Sollome J, Martin E, Sethupathy P, Fry RC. Environmental Contaminants and microRNA Regulation: Transcription Factors as Regulators of Toxicant-Altered microRNA Expression. Toxicology and Applied Pharmacology. PMID 27292125 DOI: 10.1016/J.Taap.2016.06.009  0.406
2016 Peck BC, Sincavage J, Feinstein S, Mah AT, Simmons JG, Lund PK, Sethupathy P. miR-30 family controls proliferation and differentiation of intestinal epithelial cell models by directing a broad gene expression program that includes SOX9 and the ubiquitin ligase pathway. The Journal of Biological Chemistry. PMID 27261459 DOI: 10.1074/Jbc.M116.733733  0.446
2016 Sethupathy P. The Promise and Challenge of Therapeutic MicroRNA Silencing in Diabetes and Metabolic Diseases. Current Diabetes Reports. 16: 52. PMID 27112956 DOI: 10.1007/S11892-016-0745-3  0.411
2015 Baran-Gale J, Kurtz CL, Erdos MR, Sison C, Young A, Fannin EE, Chines PS, Sethupathy P. Addressing Bias in Small RNA Library Preparation for Sequencing: A New Protocol Recovers MicroRNAs that Evade Capture by Current Methods. Frontiers in Genetics. 6: 352. PMID 26734062 DOI: 10.3389/Fgene.2015.00352  0.388
2015 Selitsky SR, Dinh TA, Toth CL, Kurtz CL, Honda M, Struck BR, Kaneko S, Vickers KC, Lemon SM, Sethupathy P. Transcriptomic Analysis of Chronic Hepatitis B and C and Liver Cancer Reveals MicroRNA-Mediated Control of Cholesterol Synthesis Programs. Mbio. 6. PMID 26646011 DOI: 10.1128/Mbio.01500-15  0.434
2015 Roman TS, Marvelle AF, Fogarty MP, Vadlamudi S, Gonzalez AJ, Buchkovich ML, Huyghe JR, Fuchsberger C, Jackson AU, Wu Y, Civelek M, Lusis AJ, Gaulton KJ, Sethupathy P, Kangas AJ, et al. Multiple Hepatic Regulatory Variants at the GALNT2 GWAS Locus Associated with High-Density Lipoprotein Cholesterol. American Journal of Human Genetics. 97: 801-15. PMID 26637976 DOI: 10.1016/J.Ajhg.2015.10.016  0.309
2015 Rutledge H, Baran-Gale J, de Villena FP, Chesler EJ, Churchill GA, Sethupathy P, Kelada SN. Identification of microRNAs associated with allergic airway disease using a genetically diverse mouse population. Bmc Genomics. 16: 633. PMID 26303911 DOI: 10.1186/S12864-015-1732-9  0.446
2015 Kurtz CL, Fannin EE, Toth CL, Pearson DS, Vickers KC, Sethupathy P. Inhibition of miR-29 has a significant lipid-lowering benefit through suppression of lipogenic programs in liver. Scientific Reports. 5: 12911. PMID 26246194 DOI: 10.1038/Srep12911  0.394
2015 Peck BC, Weiser M, Lee SE, Gipson GR, Iyer VB, Sartor RB, Herfarth HH, Long MD, Hansen JJ, Isaacs KL, Trembath DG, Rahbar R, Sadiq TS, Furey TS, Sethupathy P, et al. MicroRNAs Classify Different Disease Behavior Phenotypes of Crohn's Disease and May Have Prognostic Utility. Inflammatory Bowel Diseases. PMID 26164662 DOI: 10.1097/Mib.0000000000000478  0.34
2015 Welch JD, Baran-Gale J, Perou CM, Sethupathy P, Prins JF. Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential. Bmc Genomics. 16: 113. PMID 25765044 DOI: 10.1186/S12864-015-1227-8  0.367
2014 Vickers KC, Landstreet SR, Levin MG, Shoucri BM, Toth CL, Taylor RC, Palmisano BT, Tabet F, Cui HL, Rye KA, Sethupathy P, Remaley AT. MicroRNA-223 coordinates cholesterol homeostasis. Proceedings of the National Academy of Sciences of the United States of America. 111: 14518-23. PMID 25246565 DOI: 10.1073/Pnas.1215767111  0.396
2014 Vencken SF, Sethupathy P, Blackshields G, Spillane C, Elbaruni S, Sheils O, Gallagher MF, O'Leary JJ. An integrated analysis of the SOX2 microRNA response program in human pluripotent and nullipotent stem cell lines. Bmc Genomics. 15: 711. PMID 25156079 DOI: 10.1186/1471-2164-15-711  0.387
2014 Collins AL, Kim Y, Bloom RJ, Kelada SN, Sethupathy P, Sullivan PF. Transcriptional targets of the schizophrenia risk gene MIR137. Translational Psychiatry. 4: e404. PMID 24984191 DOI: 10.1038/Tp.2014.42  0.367
2014 Kurtz CL, Peck BC, Fannin EE, Beysen C, Miao J, Landstreet SR, Ding S, Turaga V, Lund PK, Turner S, Biddinger SB, Vickers KC, Sethupathy P. MicroRNA-29 fine-tunes the expression of key FOXA2-activated lipid metabolism genes and is dysregulated in animal models of insulin resistance and diabetes. Diabetes. 63: 3141-8. PMID 24722248 DOI: 10.2337/Db13-1015  0.42
2014 Tabet F, Vickers KC, Cuesta Torres LF, Wiese CB, Shoucri BM, Lambert G, Catherinet C, Prado-Lourenco L, Levin MG, Thacker S, Sethupathy P, Barter PJ, Remaley AT, Rye KA. HDL-transferred microRNA-223 regulates ICAM-1 expression in endothelial cells. Nature Communications. 5: 3292. PMID 24576947 DOI: 10.1038/Ncomms4292  0.379
2013 Baran-Gale J, Fannin EE, Kurtz CL, Sethupathy P. Beta cell 5'-shifted isomiRs are candidate regulatory hubs in type 2 diabetes. Plos One. 8: e73240. PMID 24039891 DOI: 10.1371/Journal.Pone.0073240  0.442
2013 Sethupathy P. Illuminating microRNA Transcription from the Epigenome. Current Genomics. 14: 68-77. PMID 23997652 DOI: 10.2174/138920213804999183  0.419
2013 Kelada S, Sethupathy P, Okoye IS, Kistasis E, Czieso S, White SD, Chou D, Martens C, Ricklefs SM, Virtaneva K, Sturdevant DE, Porcella SF, Belkaid Y, Wynn TA, Wilson MS. miR-182 and miR-10a are key regulators of Treg specialisation and stability during Schistosome and Leishmania-associated inflammation. Plos Pathogens. 9: e1003451. PMID 23825948 DOI: 10.1371/Journal.Ppat.1003451  0.395
2013 Bulik-Sullivan B, Selitsky S, Sethupathy P. Prioritization of genetic variants in the microRNA regulome as functional candidates in genome-wide association studies. Human Mutation. 34: 1049-56. PMID 23595788 DOI: 10.1002/Humu.22337  0.44
2013 Vickers KC, Sethupathy P, Baran-Gale J, Remaley AT. Complexity of microRNA function and the role of isomiRs in lipid homeostasis. Journal of Lipid Research. 54: 1182-91. PMID 23505317 DOI: 10.1194/Jlr.R034801  0.401
2013 Sethupathy P. Needles in the genetic haystack of lipid disorders: single nucleotide polymorphisms in the microRNA regulome. Journal of Lipid Research. 54: 1168-73. PMID 23505316 DOI: 10.1194/Jlr.R035766  0.42
2013 Peters U, North KE, Sethupathy P, Buyske S, Haessler J, Jiao S, Fesinmeyer MD, Jackson RD, Kuller LH, Rajkovic A, Lim U, Cheng I, Schumacher F, Wilkens L, Li R, et al. A systematic mapping approach of 16q12.2/FTO and BMI in more than 20,000 African Americans narrows in on the underlying functional variation: results from the Population Architecture using Genomics and Epidemiology (PAGE) study. Plos Genetics. 9: e1003171. PMID 23341774 DOI: 10.1371/Journal.Pgen.1003171  0.301
2013 Vickers KC, Shoucri BM, Levin MG, Wu H, Pearson DS, Osei-Hwedieh D, Collins FS, Remaley AT, Sethupathy P. MicroRNA-27b is a regulatory hub in lipid metabolism and is altered in dyslipidemia. Hepatology (Baltimore, Md.). 57: 533-42. PMID 22777896 DOI: 10.1002/Hep.25846  0.439
2012 Bonner SM, Pietropaolo SL, Fan Y, Chang Y, Sethupathy P, Morran MP, Beems M, Giannoukakis N, Trucco G, Palumbo MO, Solimena M, Pugliese A, Polychronakos C, Trucco M, Pietropaolo M. Sequence variation in promoter of Ica1 gene, which encodes protein implicated in type 1 diabetes, causes transcription factor autoimmune regulator (AIRE) to increase its binding and down-regulate expression. The Journal of Biological Chemistry. 287: 17882-93. PMID 22447927 DOI: 10.1074/Jbc.M111.319020  0.325
2012 Valdmanis PN, Gu S, Schüermann N, Sethupathy P, Grimm D, Kay MA. Expression determinants of mammalian argonaute proteins in mediating gene silencing. Nucleic Acids Research. 40: 3704-13. PMID 22210886 DOI: 10.1093/Nar/Gkr1274  0.326
2011 Melgar MF, Collins FS, Sethupathy P. Discovery of active enhancers through bidirectional expression of short transcripts. Genome Biology. 12: R113. PMID 22082242 DOI: 10.1186/Gb-2011-12-11-R113  0.332
2011 Stone N, Pangilinan F, Molloy AM, Shane B, Scott JM, Ueland PM, Mills JL, Kirke PN, Sethupathy P, Brody LC. Bioinformatic and genetic association analysis of microRNA target sites in one-carbon metabolism genes. Plos One. 6: e21851. PMID 21765920 DOI: 10.1371/Journal.Pone.0021851  0.358
2011 Vishnoi A, Sethupathy P, Simola D, Plotkin JB, Hannenhalli S. Genome-wide survey of natural selection on functional, structural, and network properties of polymorphic sites in Saccharomyces paradoxus. Molecular Biology and Evolution. 28: 2615-27. PMID 21478372 DOI: 10.1093/Molbev/Msr085  0.508
2010 Megraw M, Sethupathy P, Gumireddy K, Jensen ST, Huang Q, Hatzigeorgiou AG. Isoform specific gene auto-regulation via miRNAs: A case study on miR-128b and ARPP-21 Theoretical Chemistry Accounts. 125: 593-598. DOI: 10.1007/S00214-009-0647-4  0.315
2008 Sethupathy P, Hannenhalli S. A tutorial of the poisson random field model in population genetics. Advances in Bioinformatics. 257864. PMID 19920987 DOI: 10.1155/2008/257864  0.499
2008 Sethupathy P, Giang H, Plotkin JB, Hannenhalli S. Genome-wide analysis of natural selection on human cis-elements. Plos One. 3: e3137. PMID 18781197 DOI: 10.1371/Journal.Pone.0003137  0.515
2008 Sethupathy P, Collins FS. MicroRNA target site polymorphisms and human disease. Trends in Genetics : Tig. 24: 489-97. PMID 18778868 DOI: 10.1016/J.Tig.2008.07.004  0.314
2007 Sethupathy P, Borel C, Gagnebin M, Grant GR, Deutsch S, Elton TS, Hatzigeorgiou AG, Antonarakis SE. Human microRNA-155 on chromosome 21 differentially interacts with its polymorphic target in the AGTR1 3' untranslated region: a mechanism for functional single-nucleotide polymorphisms related to phenotypes. American Journal of Human Genetics. 81: 405-13. PMID 17668390 DOI: 10.1086/519979  0.312
2007 Kawahara Y, Zinshteyn B, Sethupathy P, Iizasa H, Hatzigeorgiou AG, Nishikura K. Redirection of silencing targets by adenosine-to-inosine editing of miRNAs. Science (New York, N.Y.). 315: 1137-40. PMID 17322061 DOI: 10.1126/science.1138050  0.334
2007 Megraw M, Sethupathy P, Corda B, Hatzigeorgiou AG. miRGen: a database for the study of animal microRNA genomic organization and function. Nucleic Acids Research. 35: D149-55. PMID 17108354 DOI: 10.1093/Nar/Gkl904  0.38
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