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An empirical framework for binary interactome mapping.


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.

SUBMITTER: Venkatesan K 

PROVIDER: S-EPMC2872561 | biostudies-literature | 2009 Jan

REPOSITORIES: biostudies-literature

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An empirical framework for binary interactome mapping.

Venkatesan Kavitha K   Rual Jean-François JF   Vazquez Alexei A   Stelzl Ulrich U   Lemmens Irma I   Hirozane-Kishikawa Tomoko T   Hao Tong T   Zenkner Martina M   Xin Xiaofeng X   Goh Kwang-Il KI   Yildirim Muhammed A MA   Simonis Nicolas N   Heinzmann Kathrin K   Gebreab Fana F   Sahalie Julie M JM   Cevik Sebiha S   Simon Christophe C   de Smet Anne-Sophie AS   Dann Elizabeth E   Smolyar Alex A   Vinayagam Arunachalam A   Yu Haiyuan H   Szeto David D   Borick Heather H   Dricot Amélie A   Klitgord Niels N   Murray Ryan R RR   Lin Chenwei C   Lalowski Maciej M   Timm Jan J   Rau Kirstin K   Boone Charles C   Braun Pascal P   Cusick Michael E ME   Roth Frederick P FP   Hill David E DE   Tavernier Jan J   Wanker Erich E EE   Barabási Albert-László AL   Vidal Marc M  

Nature methods 20081207 1


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 int  ...[more]

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