Ascore specifications

Information


Unique identifier OMICS_06874
Name Ascore
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Registration required Yes
Maintained Yes

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Maintainer


  • person_outline Steven P. Gygi <>

Information


Unique identifier OMICS_06874
Name Ascore
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Registration required Yes
Maintained Yes

Maintainer


  • person_outline Steven P. Gygi <>

Ascore article

Ascore citations

 (5)
2014
PMCID: 3930595

[…] yielded a peptide and a protein false discovery rate of 0% [72], [73]. phosphorylation site localization was assessed by exporting peak lists directly from scaffold into the online ascore algorithm (ascore.med.harvard.ed) [77]., a strain containing a g309a (w103*) null allele in tepp was initially identified by whole genome sequencing of a collection of ethyl methyl sulfonate (ems)-mutagenized […]

2013
PMCID: 3787806

[…] into scaffold 3.6.3 including an x!tandem search for evaluation and further into scaffoldptm (version 2.0, proteomesoftware.com, portland, or) for analysis of phosphorylation sites using the ascore algorithm implemented in scaffoldptm., a perl script was developed searching for scans in the ms2 peak list file (maxquant/apl and mascot distiller/mgf peak list formats are supported) […]

2012
PMCID: 3307315

[…] of 79.6 atomic mass units on serine, threonine, or tyrosine. proteins were scored using the institute for systems biology trans-proteomic pipeline (21), and phosphosite accuracy was evaluated using ascore (22)., recombinant gst-nrf2 and his6-hkelch were purified using standard techniques. seventy ng of alphascreen gsh-donor and alphalisa nickel-acceptor beads (perkinelmer life sciences) […]

2011
PMCID: 3096321

[…] by the gygi lab (8), the results of large-scale identification of phosphopeptides from drosophila embryos. sequest (14) was used to identify phosphopeptides from ms/ms spectra and subsequently ascore (21) was used to assign confidence to the phosphosite localization within the phosphopeptides. from this lc–ms/ms analysis on d. melanogaster, 13 720 unique phosphorylation sites […]

2008
PMCID: 2518918

[…] database for a compulsory peptide identification step, removing its applicability to data derived from other organisms. phoscalc allows the user to provide a peptide sequence from any source. unlike ascore, phoscalc will analyse data from ms2 and ms3 spectra, not just ms2 spectra. phoscalc also permits the user to vary the window of error for peak matching allowing for analysis of data from mass […]

Ascore institution(s)
Department of Cell Biology, Harvard Medical School, Boston, MA, USA; Department of Genetics and Norris Cotton Cancer Center, Lebanon, New Hampshire, NH, USA; Cell Signaling Technology, Inc., Beverley, MA, USA
Ascore funding source(s)
Supported in part by grants from the National Institutes of Health (HG03456 and GM67945).

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