NetGene2 pipeline

NetGene2 specifications

Information


Unique identifier OMICS_09618
Name NetGene2
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Single sequence
Input format FASTA
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
  • Plants and Fungi
    • Arabidopsis thaliana
  • Primates
    • Homo sapiens

Versioning


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Maintainer


  • person_outline Soren Bruk <>

Information


Unique identifier OMICS_09618
Name NetGene2
Interface Web user interface
Restrictions to use None
Input data Single sequence
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
  • Plants and Fungi
    • Arabidopsis thaliana
  • Primates
    • Homo sapiens

Maintainer


  • person_outline Soren Bruk <>

Publications for NetGene2

NetGene2 IN pipelines

 (2)
2013
PMCID: 3865592
PMID: 24498620
DOI: 10.1002/mgg3.23

[…] (splicefinder). splicefinder integrates two functional annotation tools for ngs, annovar and mutationtaster and two canonical splice site prediction programs for single mutation analysis, sspnn and netgene2. by splicefinder, we identified somatic mutations affecting rna splicing in a colon cancer sample, in eight atypical chronic myeloid leukemia (acml), and eight cml patients. a novel […]

2012
PMCID: 3567443
PMID: 23023333
DOI: 10.1038/ng.2425

[…] for medical research). all nucleotide numbers are in reference to chmp1a isoform 2 cdna (nm_002768, in which a of the atg start site is +1) from the ucsc genome browser., splice prediction software netgene216 was used to determine the effect of the family 1 allele on chmp1a splicing. ebv-transformed lymphocytes were grown in rpmi-1640 with 15% (v/v) fetal bovine serum and 1% (v/v) […]

NetGene2 institution(s)
Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark

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