2015-01-08T11:53:11-08:00
Resource:VARIANT
VARIANT
Department of Bioinformatics and Genomics
Centro de Investigación PrÃncipe Felipe (CIPF)
Valencia
Spain
curated
http://variant.bioinfo.cipf.es/
Analysis tool that can report the functional properties of any variant in all the human, mouse or rat genes (and soon new model organisms will be added) and the corresponding neighborhoods. Also other non-coding extra-genic regions, such as miRNAs are included in the analysis. It not only reports the obvious functional effects in the coding regions but also analyzes noncoding SNVs situated both within the gene and in the neighborhood that could affect different regulatory motifs, splicing signals, and other structural elements. These include: Jaspar regulatory motifs, miRNA targets, splice sites, exonic splicing silencers, calculations of selective pressures on the particular polymorphic positions, etc.
Software analysis pipelines used in the analysis of NGS data are highly modular, heterogeneous, and rapidly evolving. VARIANT can easily be incorporated into a NGS resequencing pipeline either as a CLI or invoked a webservice. It inputs data directly from the most widely used programs for SNV detection.
Category:BIO2011-27069
OMICS_00193
Resource:VARIANT
2015-01-08T00:00:00
22693211
Resource
VARIant ANalysis Tool
Variant effect
Resource
Synonym
Spanish Ministry of Science and Innovation
Supporting Agency
SuperCategory
Rat
Mouse
Human
Species
PMID
ModifiedDate
Resource:OMICtools
Listedby
Label
Command Line
Next Generation Sequencing
Single nucleotide variant
Function
MiRNA
Non-coding region
Gene
Variant
Functional property
Keywords
Resource:Principe Felipe Research Centre; Valencia; Spain
Is part of
Id
Data analysis software
Data analysis service
Has role
Grant
Definition
DefiningCitation
CurationStatus
Address
Abbrev