Table 3.

Recommended online microRNA resources.

Resource
Nomeclature & Genomics	What it does	URL
miRBase	A consensus site, documenting all known microRNAs for all species	www.mirbase.org/
UCSC Genome Browser	Localize a microRNA to the genome to see its neighborhood	www.genome.ucsc.edu/
miRNASNP	Identify SNPs in human microRNAs	www.bioguo.org/miRNASNP/
Mendell Lab	Primary microRNA transcript structures (human and mouse)	www4.utsouthwestern.edu/mendell-lab/resources.html
Small RNA-seq aligners
Chimira	Web-based tool for aligning small RNA-seq data to discover microRNAs	wwwdev.ebi.ac.uk/enright-dev/chimira/
MiRge	Local tool for aligning small RNA-seq data to discover microRNAs	atlas.pathology.jhu.edu/baras/miRge.html
microRNA target prediction
Diana – TarBase v7.0	Manually curated microRNA target database	diana.imis.athena-innovation.gr/DianaTools/
Public RNA-seq & Array data
Sequence Read Archive	Repository of RNA-seq data from all sequencing sources	www.ncbi.nlm.nih.gov/sra
Gene Expression Omnibus	Repository of array data from a variety of array sources	www.ncbi.nlm.nih.gov/geo/