NetChop pipeline

NetChop specifications

Information


Unique identifier OMICS_05749
Name NetChop
Interface Web user interface
Restrictions to use None
Input data An amino acid sequence.
Input format FASTA
Computer skills Basic
Version 3.1
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline NetChop Team <>

Publications for NetChop

NetChop IN pipelines

 (2)
2016
PMCID: 5019413
PMID: 27618304
DOI: 10.1371/journal.pone.0162808

[…] of miha and allelic variants were compared for predicted proteasomal cleavage, tap affinity and in vivo immunogenicity (s3b–s3d fig). no difference was observed in predicted proteasomal cleavage by netchop 3.1 (81% for miha versus 81% for allelic variants, p = 1.000) and tap affinity by tappred (40% high, 53% intermediate and 8% low affinity peptides for miha versus 47% high, 43% intermediate […]

2015
PMCID: 4551310
PMID: 26175035
DOI: 10.1093/femsre/fuv031

[…] non-redundant at the protein level. hla alleles were used as targets for the epitope predictions. hla class i-restricted 9-mer epitopes were predicted using netmhccons1.1 (karosiene et al. 2012) and netchop3.1 c-terminal peptide processing algorithm (nielsen et al. 2005). hla class ii-restricted 15-mer epitopes were predicted using netmhciipan3.0 (karosiene et al. 2013). epitope selection used […]

NetChop institution(s)
Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark; Theoretical Biology/Bioinformatics, Utrecht University, Utrecht, Netherlands

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