An empirical framework for binary interactome mapping. Export

@article{citeulike:3837639, abstract = {Several attempts have been made to systematically map protein-protein interaction, or 'interactome', networks. However, it remains difficult to assess the quality and coverage of existing data sets. Here we describe a framework that uses an empirically-based approach to rigorously dissect quality parameters of currently available human interactome maps. Our results indicate that high-throughput yeast two-hybrid (HT-Y2H) interactions for human proteins are more precise than literature-curated interactions supported by a single publication, suggesting that HT-Y2H is suitable to map a significant portion of the human interactome. We estimate that the human interactome contains approximately 130,000 binary interactions, most of which remain to be mapped. Similar to estimates of DNA sequence data quality and genome size early in the Human Genome Project, estimates of protein interaction data quality and interactome size are crucial to establish the magnitude of the task of comprehensive human interactome mapping and to elucidate a path toward this goal.}, author = {Venkatesan, Kavitha and Rual, Jean-Fran\c{c}ois F. and Vazquez, Alexei and Stelzl, Ulrich and Lemmens, Irma and Hirozane-Kishikawa, Tomoko and Hao, Tong and Zenkner, Martina and Xin, Xiaofeng and Goh, Kwang-Il I. and Yildirim, Muhammed A. and Simonis, Nicolas and Heinzmann, Kathrin and Gebreab, Fana and Sahalie, Julie M. and Cevik, Sebiha and Simon, Christophe and de Smet, Anne-Sophie S. and Dann, Elizabeth and Smolyar, Alex and Vinayagam, Arunachalam and Yu, Haiyuan and Szeto, David and Borick, Heather and Dricot, Am\'{e}lie and Klitgord, Niels and Murray, Ryan R. and Lin, Chenwei and Lalowski, Maciej and Timm, Jan and Rau, Kirstin and Boone, Charles and Braun, Pascal and Cusick, Michael E. and Roth, Frederick P. and Hill, David E. and Tavernier, Jan and Wanker, Erich E. and Barab\'{a}si, Albert-L\'{a}szl\'{o} L. and Vidal, Marc}, citeulike-article-id = {3837639}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/nmeth.1280}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/nmeth.1280}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/19060904}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=19060904}, day = {07}, doi = {10.1038/nmeth.1280}, issn = {1548-7105}, journal = {Nature methods}, keywords = {network, protein\_interaction}, month = {January}, number = {1}, pages = {83--90}, posted-at = {2009-03-18 15:30:17}, priority = {4}, publisher = {Nature Publishing Group}, title = {An empirical framework for binary interactome mapping.}, url = {http://dx.doi.org/10.1038/nmeth.1280}, volume = {6}, year = {2009} }

TY - JOUR ID - citeulike:3837639 L3 - citeulike-article-id:3837639 N2 - Several attempts have been made to systematically map protein-protein interaction, or 'interactome', networks. However, it remains difficult to assess the quality and coverage of existing data sets. Here we describe a framework that uses an empirically-based approach to rigorously dissect quality parameters of currently available human interactome maps. Our results indicate that high-throughput yeast two-hybrid (HT-Y2H) interactions for human proteins are more precise than literature-curated interactions supported by a single publication, suggesting that HT-Y2H is suitable to map a significant portion of the human interactome. We estimate that the human interactome contains approximately 130,000 binary interactions, most of which remain to be mapped. Similar to estimates of DNA sequence data quality and genome size early in the Human Genome Project, estimates of protein interaction data quality and interactome size are crucial to establish the magnitude of the task of comprehensive human interactome mapping and to elucidate a path toward this goal. IS - 1 JF - Nature methods SN - 1548-7105 EP - 90 TI - An empirical framework for binary interactome mapping. PB - Nature Publishing Group VL - 6 SP - 83 KW - network KW - protein_interaction AU - Venkatesan, Kavitha AU - Rual, Jean-François AU - Vazquez, Alexei AU - Stelzl, Ulrich AU - Lemmens, Irma AU - Hirozane-Kishikawa, Tomoko AU - Hao, Tong AU - Zenkner, Martina AU - Xin, Xiaofeng AU - Goh, Kwang-Il AU - Yildirim, Muhammed AU - Simonis, Nicolas AU - Heinzmann, Kathrin AU - Gebreab, Fana AU - Sahalie, Julie AU - Cevik, Sebiha AU - Simon, Christophe AU - de Smet, Anne-Sophie AU - Dann, Elizabeth AU - Smolyar, Alex AU - Vinayagam, Arunachalam AU - Yu, Haiyuan AU - Szeto, David AU - Borick, Heather AU - Dricot, Amélie AU - Klitgord, Niels AU - Murray, Ryan AU - Lin, Chenwei AU - Lalowski, Maciej AU - Timm, Jan AU - Rau, Kirstin AU - Boone, Charles AU - Braun, Pascal AU - Cusick, Michael AU - Roth, Frederick AU - Hill, David AU - Tavernier, Jan AU - Wanker, Erich AU - Barabási, Albert-László AU - Vidal, Marc PY - 2009/01/07/ UR - http://dx.doi.org/10.1038/nmeth.1280 ER -