Significance Analysis of
INTeractome
SAINT is a software for assigning confidence scores to protein-protein interactions based on quantitative proteomics data in AP-MS experiments. We posted the version used for spectral count data in the yeast kinase interactome work not incorporating control purification, as well as a generalized implementation for spectral count data with and without control purification.
Download
The software and vignette can be downloaded from
Compilation with GNU Scientific Library (GSL)
GSL is free from the web. Simply run the bash script ‘compile’ to install the program. Directory containing the executable should also be added to the PATH variable. Data preparation steps are described in the vignette.
References
[1] A. Breitkreutz, H. Choi, J.R. Sharom, L. Boucher, V. Neduva, B. Larsen, Z.Y. Lin, B.J. Breitkreutz, C. Stark, G. Liu, J. Ahn, D. Dewar-Darch, T. Reguly, X. Tang, R. Almeida, Z.S. Qin, T. Pawson, A.-C. Gingras, A.I. Nesvizhskii, M. Tyers (2010) A global protein kinase and phosphatase interaction network in yeast. Science, vol 328(5981):1043-6.
[2] H. Choi, B. Larsen, Z.Y. Lin, A. Breitkreutz, D. Mellacheruvu, D. Fermin, Z.S. Qin, M. Tyers, A.-C. Gingras, A.I. Nesvizhskii (2010) A probabilistic scoring of affinity purification-mass spectrometry data. Nature Methods. [Advanced E-pub]. PMID:21131968.
