TY - JOUR
T1 - The UEA sRNA workbench
T2 - A suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets
AU - Stocks, Matthew B.
AU - Moxon, Simon
AU - Mapleson, Daniel
AU - Woolfenden, Hugh C.
AU - Mohorianu, Irina
AU - Folkes, Leighton
AU - Schwach, Frank
AU - Dalmay, Tamas
AU - Moulton, Vincent
N1 - Funding Information:
Funding: Biotechnology and Biological Sciences Research Council (grant BBSRC BB/I00016X/1).
PY - 2012/8
Y1 - 2012/8
N2 - Summary: RNA silencing is a complex, highly conserved mechanism mediated by small RNAs (sRNAs), such as microRNAs (miRNAs), that is known to be involved in a diverse set of biological functions including development, pathogen control, genome maintenance and response to environmental change. Advances in next generation sequencing technologies are producing increasingly large numbers of sRNA reads per sample at a fraction of the cost of previous methods. However, many bioinformatics tools do not scale accordingly, are cumbersome, or require extensive support from bioinformatics experts. Therefore, researchers need user-friendly, robust tools, capable of not only processing large sRNA datasets in a reasonable time frame but also presenting the results in an intuitive fashion and visualizing sRNA genomic features. Herein, we present the UEA sRNA workbench, a suite of tools that is a successor to the web-based UEA sRNA Toolkit, but in downloadable format and with several enhanced and additional features.
AB - Summary: RNA silencing is a complex, highly conserved mechanism mediated by small RNAs (sRNAs), such as microRNAs (miRNAs), that is known to be involved in a diverse set of biological functions including development, pathogen control, genome maintenance and response to environmental change. Advances in next generation sequencing technologies are producing increasingly large numbers of sRNA reads per sample at a fraction of the cost of previous methods. However, many bioinformatics tools do not scale accordingly, are cumbersome, or require extensive support from bioinformatics experts. Therefore, researchers need user-friendly, robust tools, capable of not only processing large sRNA datasets in a reasonable time frame but also presenting the results in an intuitive fashion and visualizing sRNA genomic features. Herein, we present the UEA sRNA workbench, a suite of tools that is a successor to the web-based UEA sRNA Toolkit, but in downloadable format and with several enhanced and additional features.
UR - http://www.scopus.com/inward/record.url?scp=84865121074&partnerID=8YFLogxK
U2 - 10.1093/bioinformatics/bts311
DO - 10.1093/bioinformatics/bts311
M3 - Article
C2 - 22628521
AN - SCOPUS:84865121074
SN - 1367-4803
VL - 28
SP - 2059
EP - 2061
JO - Bioinformatics
JF - Bioinformatics
IS - 15
M1 - bts311
ER -