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Items: 10

1.

Experimental design for single-cell RNA sequencing.

Baran-Gale J, Chandra T, Kirschner K.

Brief Funct Genomics. 2018 Jul 1;17(4):233-239. doi: 10.1093/bfgp/elx035. Review.

2.

miRquant 2.0: an Expanded Tool for Accurate Annotation and Quantification of MicroRNAs and their isomiRs from Small RNA-Sequencing Data.

Kanke M, Baran-Gale J, Villanueva J, Sethupathy P.

J Integr Bioinform. 2016 Dec 22;13(5):307. doi: 10.2390/biecoll-jib-2016-307.

PMID:
28187421
3.

An integrative transcriptomics approach identifies miR-503 as a candidate master regulator of the estrogen response in MCF-7 breast cancer cells.

Baran-Gale J, Purvis JE, Sethupathy P.

RNA. 2016 Oct;22(10):1592-603. doi: 10.1261/rna.056895.116. Epub 2016 Aug 18.

4.

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.

5.

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.

6.

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.

7.

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.

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.

9.

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.

10.

Complexity of microRNA function and the role of isomiRs in lipid homeostasis.

Vickers KC, Sethupathy P, Baran-Gale J, Remaley AT.

J Lipid Res. 2013 May;54(5):1182-91. doi: 10.1194/jlr.R034801. Epub 2013 Mar 15. Review.

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