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

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doi doi:10.2390/biecoll-jib-2016-307
submission December 08, 2016
published December 22, 2016
NCBI PubMed PubMed ID 28187421

Matthew Kanke, Jeanette Baran-Gale, Jonathan Villanueva and Praveen Sethupathy

Correspondence should be addressed to:
Praveen Sethupathy
Department of Genetics, UNC Chapel Hill, 120 Mason Farm Road, 5091 Genetic Medicine Building, Chapel Hill, NC 27599
ude.cnu.dem@nullyhtapuhtes_neevarp


Abstract

Small non-coding RNAs, in particular microRNAs, are critical for normal physiology and are candidate biomarkers, regulators, and therapeutic targets for a wide variety of diseases. There is an ever-growing interest in the comprehensive and accurate annotation of microRNAs across diverse cell types, conditions, species, and disease states. Highthroughput sequencing technology has emerged as the method of choice for profiling microRNAs. Specialized bioinformatic strategies are required to mine as much meaningful information as possible from the sequencing data to provide a comprehensive view of the microRNA landscape. Here we present miRquant 2.0, an expanded bioinformatics tool for accurate annotation and quantification of microRNAs and their isoforms (termed isomiRs) from small RNA-sequencing data. We anticipate that miRquant 2.0 will be useful for researchers interested not only in quantifying known microRNAs but also mining the rich well of additional information embedded in small RNA-sequencing data.

Reference

Matthew Kanke, Jeanette Baran-Gale, Jonathan Villanueva and Praveen Sethupathy. 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(5):307, 2016. Online Journal: http://journal.imbio.de/index.php?paper_id=307
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