CoLIde

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

The tomato genome sequence provides insights into fleshy fruit evolution

(2012)   NATURE

Diverse correlation patterns between microRNAs and their targets during tomato fruit development indicates different modes of microRNA actions

(2012) Sara Lopez-Gomollon et al.   PLANTA

FiRePat-Finding Regulatory Patterns between sRNAs and Genes

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

Identifying small interfering RNA loci from high-throughput sequencing data

(2011) Thomas J. Hardcastle et al.   BIOINFORMATICS

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Profiling of short RNAs during fleshy fruit development reveals stage-specific sRNAome expression patterns

(2011) Irina Mohorianu et al.   PLANT JOURNAL

MapMi: automated mapping of microRNA loci

(2010) Jose Afonso Guerra-Assuncao et al.   BMC BIOINFORMATICS

Finding sRNA generative locales from high-throughput sequencing data with NiBLS

(2010) Daniel MacLean et al.   BMC BIOINFORMATICS

Rfam: Wikipedia, clans and the "decimal" release

(2010) P. P. Gardner et al.   NUCLEIC ACIDS RESEARCH

miRBase: integrating microRNA annotation and deep-sequencing data

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

The Many Pathways of RNA Degradation

(2009) Jonathan Houseley et al.   CELL

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

Computational and analytical framework for small RNA profiling by high-throughput sequencing

(2009) N. Fahlgren et al.   RNA

A toolkit for analysing large-scale plant small RNA datasets

(2008) S. Moxon et al.   BIOINFORMATICS

PatMaN: rapid alignment of short sequences to large databases

(2008) Kay Prüfer et al.   BIOINFORMATICS

The expanding world of small RNAs

(2008) Helge Großhans et al.   NATURE

An endogenous small interfering RNA pathway in Drosophila

(2008) Benjamin Czech et al.   NATURE

Discovering microRNAs from deep sequencing data using miRDeep

(2008) Marc R Friedländer et al.   NATURE BIOTECHNOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

(2008) Witold Filipowicz et al.   NATURE REVIEWS GENETICS

PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesis

(2008) R. A. Mosher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small RNAs in tomato fruit and leaf development

(2007) A ITAYA et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms