An experimentally derived confidence score for binary protein-protein interactions.
Information on protein-protein interactions is of central importance for many areas of biomedical research. At present no method exists to systematically and experimentally assess the quality of individual interactions reported in interaction mapping experiments. To provide a standardized confidence-scoring method that can be applied to tens of thousands of protein interactions, we have developed an interaction tool kit consisting of four complementary, high-throughput protein interaction assays. We benchmarked these assays against positive and random reference sets consisting of well documented pairs of interacting human proteins and randomly chosen protein pairs, respectively. A logistic regression model was trained using the data from these reference sets to combine the assay outputs and calculate the probability that any newly identified interaction pair is a true biophysical interaction once it has been tested in the tool kit. This general approach will allow a systematic and empirical assignment of confidence scores to all individual protein-protein interactions in interactome networks.
Braun
Pascal
P
Center for Cancer Systems Biology and Department of Cancer Biology, Dana-Farber Cancer Institute, 44 Binney Street, Boston, MA 02115, USA.
Tasan
Murat
M
Dreze
Matija
M
Barrios-Rodiles
Miriam
M
Lemmens
Irma
I
Yu
Haiyuan
H
Sahalie
Julie M
JM
Murray
Ryan R
RR
Roncari
Luba
L
de Smet
Anne-Sophie
AS
Venkatesan
Kavitha
K
Rual
Jean-François
JF
Vandenhaute
Jean
J
Cusick
Michael E
ME
Pawson
Tony
T
Hill
David E
DE
Tavernier
Jan
J
Wrana
Jeffrey L
JL
Roth
Frederick P
FP
Vidal
Marc
M
D000818:Animals; D006801:Humans; D011485:Protein Binding; D025941:Protein Interaction Mapping / Q000379:methods*; D011506:Proteins / Q000032:analysis* / Q000378:metabolism*; D012680:Sensitivity and Specificity
D011506:Proteins