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Essential Function of Dicer in Resolving DNA Damage in the Rapidly Dividing Cells of the Developing and Malignant Cerebellum.

Swahari V, Nakamura A, Baran-Gale J, Garcia I, Crowther AJ, Sons R, Gershon TR, Hammond S, Sethupathy P, Deshmukh M.

Cell Rep. 2016 Jan 12;14(2):216-24. doi: 10.1016/j.celrep.2015.12.037. Epub 2015 Dec 31.


Addressing Bias in Small RNA Library Preparation for Sequencing: A New Protocol Recovers MicroRNAs that Evade Capture by Current Methods.

Baran-Gale J, Kurtz CL, Erdos MR, Sison C, Young A, Fannin EE, Chines PS, Sethupathy P.

Front Genet. 2015 Dec 22;6:352. doi: 10.3389/fgene.2015.00352. eCollection 2015.


Transcriptomic Analysis of Chronic Hepatitis B and C and Liver Cancer Reveals MicroRNA-Mediated Control of Cholesterol Synthesis Programs.

Selitsky SR, Dinh TA, Toth CL, Kurtz CL, Honda M, Struck BR, Kaneko S, Vickers KC, Lemon SM, Sethupathy P.

MBio. 2015 Dec 8;6(6):e01500-15. doi: 10.1128/mBio.01500-15.


Multiple Hepatic Regulatory Variants at the GALNT2 GWAS Locus Associated with High-Density Lipoprotein Cholesterol.

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, Soininen P, Ala-Korpela M, Kuusisto J, Collins FS, Laakso M, Boehnke M, Mohlke KL.

Am J Hum Genet. 2015 Dec 3;97(6):801-15. doi: 10.1016/j.ajhg.2015.10.016.


tDRmapper: challenges and solutions to mapping, naming, and quantifying tRNA-derived RNAs from human small RNA-sequencing data.

Selitsky SR, Sethupathy P.

BMC Bioinformatics. 2015 Nov 4;16:354. doi: 10.1186/s12859-015-0800-0.


The DNAJB1-PRKACA chimera: Candidate biomarker and therapeutic target for fibrolamellar carcinomas.

Reid LM, Sethupathy P.

Hepatology. 2016 Feb;63(2):662-4. doi: 10.1002/hep.28307. Epub 2015 Dec 14. No abstract available.


Model of fibrolamellar hepatocellular carcinomas reveals striking enrichment in cancer stem cells.

Oikawa T, Wauthier E, Dinh TA, Selitsky SR, Reyna-Neyra A, Carpino G, Levine R, Cardinale V, Klimstra D, Gaudio E, Alvaro D, Carrasco N, Sethupathy P, Reid LM.

Nat Commun. 2015 Oct 6;6:8070. doi: 10.1038/ncomms9070.


Identification of microRNAs associated with allergic airway disease using a genetically diverse mouse population.

Rutledge H, Baran-Gale J, de Villena FP, Chesler EJ, Churchill GA, Sethupathy P, Kelada SN.

BMC Genomics. 2015 Aug 25;16:633. doi: 10.1186/s12864-015-1732-9.


Inhibition of miR-29 has a significant lipid-lowering benefit through suppression of lipogenic programs in liver.

Kurtz CL, Fannin EE, Toth CL, Pearson DS, Vickers KC, Sethupathy P.

Sci Rep. 2015 Aug 6;5:12911. doi: 10.1038/srep12911.


MicroRNAs Classify Different Disease Behavior Phenotypes of Crohn's Disease and May Have Prognostic Utility.

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, Sheikh SZ.

Inflamm Bowel Dis. 2015 Sep;21(9):2178-87. doi: 10.1097/MIB.0000000000000478.


Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential.

Welch JD, Baran-Gale J, Perou CM, Sethupathy P, Prins JF.

BMC Genomics. 2015 Feb 22;16:113. doi: 10.1186/s12864-015-1227-8.


Small tRNA-derived RNAs are increased and more abundant than microRNAs in chronic hepatitis B and C.

Selitsky SR, Baran-Gale J, Honda M, Yamane D, Masaki T, Fannin EE, Guerra B, Shirasaki T, Shimakami T, Kaneko S, Lanford RE, Lemon SM, Sethupathy P.

Sci Rep. 2015 Jan 8;5:7675. doi: 10.1038/srep07675.


Prospective associations of coronary heart disease loci in African Americans using the MetaboChip: the PAGE study.

Franceschini N, Hu Y, Reiner AP, Buyske S, Nalls M, Yanek LR, Li Y, Hindorff LA, Cole SA, Howard BV, Stafford JM, Carty CL, Sethupathy P, Martin LW, Lin DY, Johnson KC, Becker LC, North KE, Dehghan A, Bis JC, Liu Y, Greenland P, Manson JE, Maeda N, Garcia M, Harris TB, Becker DM, O'Donnell C, Heiss G, Kooperberg C, Boerwinkle E.

PLoS One. 2014 Dec 26;9(12):e113203. doi: 10.1371/journal.pone.0113203. eCollection 2014.


MicroRNA-223 coordinates cholesterol homeostasis.

Vickers KC, Landstreet SR, Levin MG, Shoucri BM, Toth CL, Taylor RC, Palmisano BT, Tabet F, Cui HL, Rye KA, Sethupathy P, Remaley AT.

Proc Natl Acad Sci U S A. 2014 Oct 7;111(40):14518-23. doi: 10.1073/pnas.1215767111. Epub 2014 Sep 22.


An integrated analysis of the SOX2 microRNA response program in human pluripotent and nullipotent stem cell lines.

Vencken SF, Sethupathy P, Blackshields G, Spillane C, Elbaruni S, Sheils O, Gallagher MF, O'Leary JJ.

BMC Genomics. 2014 Aug 25;15:711. doi: 10.1186/1471-2164-15-711.


Transcriptional targets of the schizophrenia risk gene MIR137.

Collins AL, Kim Y, Bloom RJ, Kelada SN, Sethupathy P, Sullivan PF.

Transl Psychiatry. 2014 Jul 1;4:e404. doi: 10.1038/tp.2014.42.


MicroRNA-29 fine-tunes the expression of key FOXA2-activated lipid metabolism genes and is dysregulated in animal models of insulin resistance and diabetes.

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.

Diabetes. 2014 Sep;63(9):3141-8. doi: 10.2337/db13-1015. Epub 2014 Apr 10.


HDL-transferred microRNA-223 regulates ICAM-1 expression in endothelial cells.

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.

Nat Commun. 2014 Feb 28;5:3292. doi: 10.1038/ncomms4292.


Genetics. Genetics driving epigenetics.

Furey TS, Sethupathy P.

Science. 2013 Nov 8;342(6159):705-6. doi: 10.1126/science.1246755. No abstract available.


Beta cell 5'-shifted isomiRs are candidate regulatory hubs in type 2 diabetes.

Baran-Gale J, Fannin EE, Kurtz CL, Sethupathy P.

PLoS One. 2013 Sep 9;8(9):e73240. doi: 10.1371/journal.pone.0073240. eCollection 2013.

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