Protein interaction mapping: a Drosophila case study.
The Drosophila (fruit fly) model system has been instrumental in our current understanding of human biology, development, and diseases. Here, we used a high-throughput yeast two-hybrid (Y2H)-based technology to screen 102 bait proteins from Drosophila melanogaster, most of them orthologous to human cancer-related and/or signaling proteins, against high-complexity fly cDNA libraries. More than 2300 protein-protein interactions (PPI) were identified, of which 710 are of high confidence. The computation of a reliability score for each protein-protein interaction and the systematic identification of the interacting domain combined with a prediction of structural/functional motifs allow the elaboration of known complexes and the identification of new ones. The full data set can be visualized using a graphical Web interface, the PIMRider (http://pim.hybrigenics.com), and is also accessible in the PSI standard Molecular Interaction data format. Our fly Protein Interaction Map (PIM) is surprisingly different from the one recently proposed by Giot et al. with little overlap between the two data sets. Analysis of the differences in data sets and methods suggests alternative strategies to enhance the accuracy and comprehensiveness of the post-genomic generation of broad-scale protein interaction maps.
Formstecher
Etienne
E
Hybrigenics, 75014 Paris, France.
Aresta
Sandra
S
Collura
Vincent
V
Hamburger
Alexandre
A
Meil
Alain
A
Trehin
Alexandra
A
Reverdy
Céline
C
Betin
Virginie
V
Maire
Sophie
S
Brun
Christine
C
Jacq
Bernard
B
Arpin
Monique
M
Bellaiche
Yohanns
Y
Bellusci
Saverio
S
Benaroch
Philippe
P
Bornens
Michel
M
Chanet
Roland
R
Chavrier
Philippe
P
Delattre
Olivier
O
Doye
Valérie
V
Fehon
Richard
R
Faye
Gérard
G
Galli
Thierry
T
Girault
Jean-Antoine
JA
Goud
Bruno
B
de Gunzburg
Jean
J
Johannes
Ludger
L
Junier
Marie-Pierre
MP
Mirouse
Vincent
V
Mukherjee
Ashim
A
Papadopoulo
Dora
D
Perez
Franck
F
Plessis
Anne
A
Rossé
Carine
C
Saule
Simon
S
Stoppa-Lyonnet
Dominique
D
Vincent
Alain
A
White
Michael
M
Legrain
Pierre
P
Wojcik
Jérôme
J
Camonis
Jacques
J
Daviet
Laurent
L
D000818:Animals; D001483:Base Sequence; D018076:DNA, Complementary / Q000235:genetics; D029721:Drosophila Proteins / Q000737:chemistry / Q000235:genetics* / Q000378:metabolism*; D004331:Drosophila melanogaster / Q000235:genetics* / Q000378:metabolism*; D015723:Gene Library; D017344:Genes, Insect; D011905:Genes, ras; D006801:Humans; D011485:Protein Binding; D017434:Protein Structure, Tertiary; D013045:Species Specificity; D020798:Two-Hybrid System Techniques
D018076:DNA, Complementary; D029721:Drosophila Proteins