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PMID: 21131968 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

SAINT: probabilistic scoring of affinity purification-mass spectrometry data.

Nature methods ·Vol. 8 ·No. 1 ·2011-01-00 ·Pages 70-3

Choi H, Larsen B, Lin ZY, Breitkreutz A, Mellacheruvu D, Fermin D, Qin ZS, Tyers M, Gingras AC, Nesvizhskii AI

Abstract

We present 'significance analysis of interactome' (SAINT), a computational tool that assigns confidence scores to protein-protein interaction data generated using affinity purification-mass spectrometry (AP-MS). The method uses label-free quantitative data and constructs separate distributions for true and false interactions to derive the probability of a bona fide protein-protein interaction. We show that SAINT is applicable to data of different scales and protein connectivity and allows transparent analysis of AP-MS data.

MeSH Terms
Chromatography, Affinity/methods Computational Biology Computer Simulation Mass Spectrometry Probability Protein Binding Protein Interaction Mapping/methods Proteins/isolation & purification,metabolism
Chemicals
Proteins
Authors & Affiliations
10 authors, click to expand affiliations / ORCID
Choi Hyungwon
Department of Pathology, University of Michigan, Ann Arbor, Michigan, USA.
Larsen Brett
Lin Zhen-Yuan
Breitkreutz Ashton
Mellacheruvu Dattatreya
Fermin Damian
Qin Zhaohui S
Tyers Mike
Gingras Anne-Claude
Nesvizhskii Alexey I
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Article Info
Journal
Nature methods
Abbr.
Nat Methods
ISSN
1548-7105
DOI
10.1038/nmeth.1541
Published
2011-01-00
Epub
2010-00-05
Pages
70-3
Language
English
Region
United States
NLM ID
101215604
PMCID
PMC3064265
Subset
IM
Grants
NCI NIH HHS · R01-CA126239 · United States
CIHR · MOP-12246 · Canada
NCI NIH HHS · R01 CA126239 · United States
NIGMS NIH HHS · R01 GM094231 · United States
NCI NIH HHS · R01 CA126239-04 · United States
NIGMS NIH HHS · R01 GM094231-01 · United States
CIHR · MOP-84314 · Canada
NCRR NIH HHS · R01 RR024031 · United States
External Links
PubMed source DOI: 10.1038/nmeth.1541 PMC Full Text View journal details
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