PolymiRTS Database 3.0: Linking polymorphisms in microRNAs and their target sites with human diseases and biological pathways

Anindya Bhattacharya, Jesse D. Ziebarth, Yan Cui

Research output: Contribution to journalArticle

148 Citations (Scopus)

Abstract

Polymorphisms in microRNAs (miRNAs) and their target sites (PolymiRTS) are known to disrupt miRNA function, leading to the development of disease and variation in physiological and behavioral phenotypes. Here, we describe recent updates to the PolymiRTS database (http://compbio.uthsc.edu/miRSNP), an integrated platform for analyzing the functional impact of genetic polymorphisms in miRNA seed regions and miRNA target sites. Recent advances in genomic technologies have made it possible to identify miRNA-mRNA binding sites from direct mapping experiments such as CLASH (cross linking, ligation and sequencing of hybrids). We have integrated data from CLASH experiments in the PolymiRTS database to provide more complete and accurate miRNA-mRNA interactions. Other significant new features include (i) small insertions and deletions in miRNA seed regions and miRNA target sites, (ii) TargetScan context + score differences for assessing the impact of polymorphic miRNA-mRNA interactions and (iii) biological pathways. The browse and search pages of PolymiRTS allow users to explore the relations between the PolymiRTSs and gene expression traits, physiological and behavioral phenotypes, human diseases and biological pathways.

Original languageEnglish (US)
JournalNucleic Acids Research
Volume42
Issue numberD1
DOIs
StatePublished - Jan 1 2014

Fingerprint

MicroRNAs
Databases
Messenger RNA
Ligation
Seeds
Phenotype
Genetic Polymorphisms
Binding Sites
Technology
Gene Expression

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

PolymiRTS Database 3.0 : Linking polymorphisms in microRNAs and their target sites with human diseases and biological pathways. / Bhattacharya, Anindya; Ziebarth, Jesse D.; Cui, Yan.

In: Nucleic Acids Research, Vol. 42, No. D1, 01.01.2014.

Research output: Contribution to journalArticle

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