Tonikian R, Xin X, Toret C, Gfeller D, Landgraf C, Panni S, Paoluzi S, Castagnoli L, Currell B, Seshagiri S, Yu H, Barbara Winsor, Vidal M, Davidson A, Gerstein M, Bader G, Volkmer-Engert R, Cesareni G, Drubin D, Kim P, Sidhu S, Boone C.
Bayesian modeling of the yeast SH3 domain interactome predicts spatiotemporal dynamics of endocytosis proteins.
PLoS Biol 2009; 7:1-20.

Markson G, Kiel C, Hyde R, Brown S, Charalabous P, Bremm A, Semple J, Woodsmith J, Duley S, Salehi-Ashtiani K, Vidal M, Komander D, Serrano L, Lehner P, Sanderson CM.
Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network.
Genome Res 2009; 19:1905-11.

Manichaikul A, Ghamsari L, Hom EFY, Lin C, Murray RR, Chang RL, Balaji S, Hao T, Shen YC, Arvind K., Thiele I, Yang X, Fan C, Mello E, Hill DE, Vidal M, Salehi-Ashtiani K, Papin JA.
Metabolic network analysis integrated with transcript verification for sequenced genomes.
Nat Methods 2009; 6:589-92.

Carvunis A-R, Gomez E, Thierry-Mieg N, Trilling L, Vidal M. [Systems biology: from yesterday's concepts to tomorrow's discoveries].
Médecines Science (Paris) 2009; 25:578-584.

Xin X, Rual J-F, Hirozane-Kishikawa T, Hill DE, Vidal M, Boone C, Thierry-Mieg N.
Shifted Transversal Design smart-pooling for high coverage interactome mapping.
Genome Res 2009; 19:1262-9.

Aebersold R, Auffray C, Baney E, Barillot E, Brazma A, Brett C, Brunak S, Butte A, Califano A, Celis J, Cufer T, Ferrell J, David Galas, Daniel Gallahan, Robert Gatenby, Goldbeter A, Hace N, Henney A, Hood L, Iyengar R, Jackson V, Kallioniemi O, Klingmüller U, Kolar P, Kolch W, Kyriakopoulou C, Laplace F, Lehrach H, Marcus F, Matrisian L, Nolan G, Pelkmans L, Potti A, Sander C, Seljak M, Singer D, Sorger P, Stunnenberg H, Superti-Furga G, Uhlen M, Vidal M, Weinstein J, Wigle D, Williams M, Wolkenhauer O, Zhivotovsky B, Zinovyev A, Zupan B.
How systems biology can advance cancer research.
Mol Oncol 2009; 3:9-17.

van der Voet M, Berends CWH, Perreault A, Nguyen-Ngoc T, Gönczy P, Vidal M, Boxem M, van den Heuvel S.
NuMA-related LIN-5, ASPM-1, calmodulin and dynein promote meiotic spindle rotation independently of cortical LIN-5/GPR/Gα.
Nat Cell Biol 2009;11:269-77.

Lievens S, Vanderroost N, Van der Heyden J, Gesellchen V, Vidal M, Tavernier J.
Array MAPPIT: High-throughput interactome analysis in mammalian cells.
J Proteome Res 2009;8:877-86.

Cusick ME, Yu H, Smolyar A, Carvunis A-R, Simonis N, Rual J-F, Borick H, Braun P, Dreze M, Vandenhaute J, Galli M, Yazaki J, Hill DE, Ecker JR, Roth FP, Vidal M.
Literature-curated protein interaction datasets.
Nat Methods 2009; 6:39-46.

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Simonis N, Rual JF, Carvunis AR, Tasan M, Lemmons I, Hirozane-Kishikawa T, Hao T, Sahalie JM, Venkatesan K, Gebreab F, Cevik S, Klitgord N, Fan C, Braun P, Li N, Ayivi-Guedehoussou N, Dann E, Bertin N, Szeto D, Dricot A, Yildirim MA, Lin C, de Smet AS, Kao HL, Simon C, Smolyar A, Ahn JS, Tewari M, Boxem M, Milstein S, Yu H, Dreze M, Vandenhaute J, Gunsalus KC, Cusick ME, Hill DE, Tavernier J, Roth FP, Vidal M.
Empirically-controlled mapping of the Caenorhabditis elegans protein-protein interactome network.
Nat Methods 2009; 6:47-54.

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Technology Feature, Nature

Venkatesan K, Rual JF, Vazquez A, Stelzl U, Lemmens I, Hirozane-Kishikawa T, Hao T, Zenkner M, Xin X, Goh KI, Yildirim MA, Simonis N, Heinzmann K, Gebreab F, Sahalie JM, Cevik S, Simon C, de Smet AS, Dann E, Smolyar A, Vinayagam A, Yu H, Szeto D, Borick H, Dricot A, Klitgord N, Murray RR, Lin C, Lalowski M, Timm J, Rau K, Boone C, Braun P, Cusick ME, Roth FP, Hill DE, Tavernier J, Wanker EE, Barabási AL, Vidal M.
An empirical framework for binary interactome mapping
Nat Methods 2009; 6:83-90.

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Technology Feature, Nature

Braun P, Tasan M, Dreze M, Barrios-Rodiles M, Lemmens I, Yu H, Sahalie JM, Murray RR, Roncari L, de Smet AS, Venkatesan K, Rual JF, Vandenhaute J, Cusick ME, Pawson T, Hill DE, Tavernier J, Wrana JL, Roth FP, Vidal M.
An experimentally derived confidence score for binary protein-protein interactions.
Nat Methods 2009; 6:91-97.

Editorial, Nature Methods

Technology Feature, Nature