miRVaS statistics

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Citations per year

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Tool usage distribution map

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Associated diseases

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miRVaS specifications

Information


Unique identifier OMICS_09979
Name miRVaS
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data miRVaS requires three input files: (i) a variant file in tab-delimited format with the genomic coordinates (zero based half open format), reference and alternative allele of the variants or in VCF format, (ii) a genome file and (iii) a miRNA database file describing all functional regions within the miRNAs.
Output data The output is presented in a tab-separated file, which enables fast screening, and in an html file, which allows visual comparison between wild-type and variant structures. All separate images are provided for downstream use.
Operating system Unix/Linux, Windows
Programming languages Java
Computer skills Advanced
Version 1.0.2
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Jurgen Del Favero <>

Information


Unique identifier OMICS_09979
Name miRVaS
Interface Web user interface
Restrictions to use None
Input data miRVaS requires three input files: (i) a variant file in tab-delimited format with the genomic coordinates (zero based half open format), reference and alternative allele of the variants or in VCF format, (ii) a genome file and (iii) a miRNA database file describing all functional regions within the miRNAs.
Output data The output is presented in a tab-separated file, which enables fast screening, and in an html file, which allows visual comparison between wild-type and variant structures. All separate images are provided for downstream use.
Programming languages Java
Computer skills Basic
Version 1.0.2
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Jurgen Del Favero <>

Publication for miRVaS

miRVaS in publications

 (3)
PMCID: 5192506
PMID: 27999330
DOI: 10.3390/genes7120130

[…] biology, suggesting these mirnas may be involved in lymphomagenesis []., cammaerts et al. [] have developed a software tool for predicting the impact of gene variants on mirna expression, called mirvas. this was designed to overcome time-consuming processes and manual errors experienced with determining secondary mirna structures with variants using the mirsnp database tool, especially […]

PMCID: 5173090
PMID: 27232940
DOI: 10.18632/oncotarget.9566

[…] by modulating cancer-related genes' expression and thus involve tumorigenesis and anti-chemotherapy. furthermore, the in silico functional analysis of rs3746444 and rs4919510 was conducted by mirvas: a tool to predict the impact of genetic variants on mirnas []. the results showed that rs3746444 was located at mature3p(a+5)seed of mir-499. it could change the hairpin structure and affect […]

PMCID: 4695081
PMID: 26714269
DOI: 10.1371/journal.pone.0144428

[…] c and d in ). all variants with (unadjusted) p-value < 0.05 were considered for assessment of variant location relative to the functional mirna regions and structural impact prediction using the mirvas software []., based on the association analysis and impact prediction, two variants were selected for further functional studies. the first variant, rs7861254 c>t, showed a significant […]


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miRVaS institution(s)
Applied Molecular Genomics Unit, Department of Molecular Genetics, VIB, Antwerp, Belgium; University of Antwerp, Antwerp, Belgium; Multiplicom NV, Niel, Belgium
miRVaS funding source(s)
Research Foundation—Flanders [G027410N]; University Research Fund [UA-KP BOF/MS-2013 6264]

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