GV specifications

Information


Unique identifier OMICS_11062
Name GV
Alternative name GeneValidator
Interface Web user interface
Restrictions to use None
Input data Nucleotide sequences or amino acid sequences
Input format FASTA
Output data HTML, JSON, Tab-delimited
License GNU Affero General Public License version 3
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Yannick Wurm

Information


Unique identifier OMICS_11062
Name GV
Alternative name GeneValidator
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Nucleotide sequences or amino acid sequences
Input format FASTA
Output data HTML, JSON, Tab-delimited
Operating system Unix/Linux
License GNU Affero General Public License version 3
Computer skills Advanced
Stability Stable
Requirements
Ruby, NCBI BLAST+, MAFFT
Maintained Yes

Download


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Versioning


No version available

Maintainer


  • person_outline Yannick Wurm

Publication for GeneValidator

GV citations

 (2)
library_books

The North American bullfrog draft genome provides insight into hormonal regulation of long noncoding RNA

2017
Nat Commun
PMCID: 5681567
PMID: 29127278
DOI: 10.1038/s41467-017-01316-7

[…] nt to a Pfam (release 29.0) model (E-value < 0.05) were assigned a putative domain-based annotation. There were two levels of confidence for the annotations: (1) the most robust were identified using GeneValidator, which compares protein coding gene predictions with similar database proteins, where those having a score of 90 or greater were definitively identified as the Swiss-Prot sequence they a […]

library_books

Genome Informatics 2016

2017
Genome Biol
PMCID: 5240446
PMID: 28093077
DOI: 10.1186/s13059-016-1135-5

[…] CM (http://docm.genome.wustl.edu/), a database of known mutations in cancer. DoCM contains approximately 1000 mutations in 132 cell lines.Ismail Moghul (Queen Mary University of London, UK) presented GeneValidator, which identifies potential problems in gene prediction, by comparing predicted genes with gene annotations from other resources. Ryan Layer (University of Utah, USA) described GIGGLE (h […]

GV institution(s)
Department of Computer Science, ETH Zürich, Switzerland; School of Biological and Chemical Sciences, Queen Mary University of London, UK; University of Concepción, Chile
GV funding source(s)
This work was supported by Sciruby community, NESCent Google Summer of Code, Biotechnology and Biological Sciences Research Council [BB/K004204/1], Natural Environment Research Council [NE/L00626X/1, EOS Cloud], and QMUL Apocrita Midplus (EP/K000128/1).

GV review

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Anonymous user #11772

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Web
Great tool :)