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NetPhosK specifications

Information


Unique identifier OMICS_02435
Name NetPhosK
Interface Web user interface
Restrictions to use None
Computer skills Basic
Maintained Yes

Maintainer


  • person_outline Thomas Sicheritz Pontén <>

Publication for NetPhosK

NetPhosK in publications

 (165)
PMCID: 5808226
PMID: 29467668
DOI: 10.3389/fphys.2018.00057

[…] bioinformatics, including translate, compute pi/mw, blast and tmhmm, were used to analyze the deduced csdrip1 protein sequence. phosphorylation and kinases sites were predicted using netphos 2.0 and netphosk 1.0, respectively (blom et al., , ). amino acid sequences were used to estimate phylogeny with the neighbor-joining, minimum evolution, maximum likelihood and maximum parsimony methods. […]

PMCID: 5738411
PMID: 29263348
DOI: 10.1038/s41598-017-18256-3

[…] using netphos 3.1, gps 3.0, or phosphosvm. under netphos 3.1, both generic- and kinase-specific predictions are performed, and the kinase-specific predictions by netphos 3.1 cover the prediction by netphosk 1.0. gps 3.0 predicts kinase-specific phosphorylations with a large-scale prediction of >13,000 mammalian phosphorylation sites and a proteome-wide prediction of aurora-b specific […]

PMCID: 5680263
PMID: 29123182
DOI: 10.1038/s41598-017-15087-0

[…] of the channel. comparative studies of available phosphorylation databases (kinexus phosphonet, phosphositeplus, phosida) and trials of in silico phosphorylation site prediction programs (netphosk 1.0, networkin, pkaps, gps 2.1, ppsp, scansite,) were used to predict pka substrate sites. considering direct enzyme-substrate interactions when a serine was preceded by an arginine at −3 […]

PMCID: 5660750
PMID: 29312990
DOI: 10.1155/2017/1826496

[…] potential false positive to further improve performance. for example, linding et al. [] develop a web server, namely, networkin, which is based on known sequence motif extracted from scansite and netphosk, and the biological context of substrates is used as a filter to reduce false positives. meanwhile, to discover the potential protein kinases of the unannotated phosphorylation sites, song […]

PMCID: 5682968
PMID: 28939766
DOI: 10.1074/jbc.M117.799676

[…] due to calcineurin inhibition (), suggesting that other phosphatases and kinases also regulate brg1 during myogenesis and almost certainly in other cell types. further analysis of brg1 sequence with netphosk predictor program () showed casein kinase 2 (ck2) as a putative kinase for brg1 (). ck2 is a ubiquitously expressed ser/thr kinase with over 300 identified substrates (, ). it is expressed […]


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

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