SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra

CM Bailey; Steve Sweet; Debbie Cunningham; M Zeller; John Heath; Helen Cooper

doi:10.1021/pr800917p

SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra

CM Bailey, Steve Sweet, Debbie Cunningham, M Zeller, John Heath, Helen Cooper

Biosciences

Research output: Contribution to journal › Article › peer-review

79 Citations (Scopus)

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Abstract

Recently, software has become available to automate localization of phosphorylation sites from CID data and to assign associated confidence scores. We present an algorithm, SLoMo (Site Localization of Modifications), which extends this capability to ETD/ECD mass spectra. Furthermore, SLoMo caters for both high and low resolution data and allows for site-localization of any UniMod post-translational modification. SLoMo accepts input data from a variety of formats (e.g., Sequest, OMSSA). We validate SLoMo with high and low resolution ETD, ECD, and CID data

Original language	English
Pages (from-to)	1965-1971
Number of pages	7
Journal	Journal of Proteome Research
Volume	8
Issue number	4
Early online date	10 Mar 2009
DOIs	https://doi.org/10.1021/pr800917p
Publication status	Published - Apr 2009

Keywords

site localization
mass spectrometry
post-translational modifications
phosphoproteomics
phosphopeptide
bioinformatics
phosphorylation
Ascore

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cooper_ACS2009.pdfFinal published version, 1.4 MB

http://dx.doi.org/10.1021/pr800917p

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title = "SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra",

abstract = "Recently, software has become available to automate localization of phosphorylation sites from CID data and to assign associated confidence scores. We present an algorithm, SLoMo (Site Localization of Modifications), which extends this capability to ETD/ECD mass spectra. Furthermore, SLoMo caters for both high and low resolution data and allows for site-localization of any UniMod post-translational modification. SLoMo accepts input data from a variety of formats (e.g., Sequest, OMSSA). We validate SLoMo with high and low resolution ETD, ECD, and CID data",

keywords = "site localization, mass spectrometry, post-translational modifications, phosphoproteomics, phosphopeptide, bioinformatics, phosphorylation, Ascore",

author = "CM Bailey and Steve Sweet and Debbie Cunningham and M Zeller and John Heath and Helen Cooper",

year = "2009",

month = apr,

doi = "10.1021/pr800917p",

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publisher = "American Chemical Society",

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T1 - SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra

AU - Bailey, CM

AU - Sweet, Steve

AU - Cunningham, Debbie

AU - Zeller, M

AU - Heath, John

AU - Cooper, Helen

PY - 2009/4

Y1 - 2009/4

N2 - Recently, software has become available to automate localization of phosphorylation sites from CID data and to assign associated confidence scores. We present an algorithm, SLoMo (Site Localization of Modifications), which extends this capability to ETD/ECD mass spectra. Furthermore, SLoMo caters for both high and low resolution data and allows for site-localization of any UniMod post-translational modification. SLoMo accepts input data from a variety of formats (e.g., Sequest, OMSSA). We validate SLoMo with high and low resolution ETD, ECD, and CID data

AB - Recently, software has become available to automate localization of phosphorylation sites from CID data and to assign associated confidence scores. We present an algorithm, SLoMo (Site Localization of Modifications), which extends this capability to ETD/ECD mass spectra. Furthermore, SLoMo caters for both high and low resolution data and allows for site-localization of any UniMod post-translational modification. SLoMo accepts input data from a variety of formats (e.g., Sequest, OMSSA). We validate SLoMo with high and low resolution ETD, ECD, and CID data

KW - site localization

KW - mass spectrometry

KW - post-translational modifications

KW - phosphoproteomics

KW - phosphopeptide

KW - bioinformatics

KW - phosphorylation

KW - Ascore

U2 - 10.1021/pr800917p

DO - 10.1021/pr800917p

M3 - Article

C2 - 19275241

VL - 8

SP - 1965

EP - 1971

JO - Journal of Proteome Research

JF - Journal of Proteome Research

IS - 4

ER -

SLoMo: Automated Site Localization of Modifications from ETD/ECD Mass Spectra

Abstract

Keywords

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