omiRas: a Web server for differential expression analysis of miRNAs derived from small RNA-Seq data

CPSS: a computational platform for the analysis of small RNA deep sequencing data

(2012) Yuanwei Zhang et al.   BIOINFORMATICS

ncPRO-seq: a tool for annotation and profiling of ncRNAs in sRNA-seq data

(2012) Chong-Jian Chen et al.   BIOINFORMATICS

The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets

(2012) M. B. Stocks et al.   BIOINFORMATICS

FiRePat-Finding Regulatory Patterns between sRNAs and Genes

(2012) Irina Mohorianu et al.   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

wapRNA: a web-based application for the processing of RNA sequences

(2011) Wenming Zhao et al.   BIOINFORMATICS

DARIO: a ncRNA detection and analysis tool for next-generation sequencing experiments

(2011) Mario Fasold et al.   NUCLEIC ACIDS RESEARCH

miRBase: integrating microRNA annotation and deep-sequencing data

(2010) A. Kozomara et al.   NUCLEIC ACIDS RESEARCH

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

miRanalyzer: a microRNA detection and analysis tool for next-generation sequencing experiments

(2009) Michael Hackenberg et al.   NUCLEIC ACIDS RESEARCH

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Discovering microRNAs from deep sequencing data using miRDeep

(2008) Marc R Friedländer et al.   NATURE BIOTECHNOLOGY

Small non-coding RNAs in animal development

(2008) Giovanni Stefani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH

An Analysis of Human MicroRNA and Disease Associations

(2008) Ming Lu et al.   PLoS One