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Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network

Simonis, Nicolas and Rual, Jean-François and Carvunis, Anne-Ruxandra and Tasan, Murat and Lemmens, Irma and Hirozane-Kishikawa, Tomoko and Hao, Tong and Sahalie, Julie M and Venkatesan, Kavitha and Gebreab, Fana and Cevik, Sebiha and Klitgord, Niels and Fan, Changyu and Braun, Pascal and Li, Ning and Ayivi-Guedehoussou, Nono and Dann, Elizabeth and Bertin, Nicolas and Szeto, David and Dricot, Amélie and Yildirim, Muhammed A and Lin, Chenwei and de Smet, Anne-Sophie and Kao, Huey-Ling and Simon, Christophe and Smolyar, Alex and Ahn, Jin Sook and Tewari, Muneesh and Boxem, Mike and Milstein, Stuart and Yu, Haiyuan and Dreze, Matija and Vandenhaute, Jean and Gunsalus, Kristin C and Cusick, Michael E and Hill, David E and Tavernier, Jan and Roth, Frederick P and Vidal, Marc (2009) Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network. Nature Methods, 6 (1). pp. 47-54. ISSN 1548-7105


To provide accurate biological hypotheses and elucidate global properties of cellular networks, systematic identification of protein-protein interactions must meet high quality standards.We present an expanded C. elegans protein-protein interaction network, or 'interactome' map, derived from testing a matrix of approximately 10,000 x approximately 10,000 proteins using a highly specific, high-throughput yeast two-hybrid system. Through a new empirical quality control framework, we show that the resulting data set (Worm Interactome 2007, or WI-2007) was similar in quality to low-throughput data curated from the literature. We filtered previous interaction data sets and integrated them with WI-2007 to generate a high-confidence consolidated map (Worm Interactome version 8, or WI8). This work allowed us to estimate the size of the worm interactome at approximately 116,000 interactions. Comparison with other types of functional genomic data shows the complementarity of distinct experimental approaches in predicting different functional relationships between genes or proteins

Item Type: Article
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Additional Information: Author can archive post-print (ie final draft post-refereeing); Publisher's version/PDF cannot be used
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Date Deposited: 22 Feb 2010 11:50
Last Modified: 31 Jan 2013 00:51


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