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          Institute: MPI für molekulare Genetik     Collection: Independent Junior Research Groups (Otto-Warburg-Laboratory)     Display Documents



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ID: 460096.0, MPI für molekulare Genetik / Independent Junior Research Groups (Otto-Warburg-Laboratory)
An empirical framework for binary interactome mapping
Authors:Venkatesan, Kavitha; Rual, Jean-François; Vazquez, Alexei; Stelzl, Ulrich; Lemmens, Irma; Hirozane-Kishikawa, Tomoko; Hao, Tong; Zenkner, Martina; Xin, Xiaofeng; Goh, Kwang-Il.; Yildirim, Muhammed A.; Simonis, Nicolas; Heinzmann, Kathrin; Gebreab, Fana; Sahalie, Julie M.; Cevik, Sebiha; Simon, Christophe; de Smet, Anne-Sophie; Dann, Elizabeth; Smolyar, Alex; Vinayagam, Arunachalam; Yu, Haiyuan; Szeto, David; Borick, Heather; Dricot, Amélie; Klitgord, Niels; Murray, Ryan R.; Lin, Chenwei; Lalowski, Maciej; Timm, Jan; Rau, Kirstin; Boone, Charles; Braun, Pascal; Cusick, Michael E.; Roth, Frederick P.; Hill, David E.; Tavernier, Jan; Wanker, Erich E.; Barabási, Albert-László; Vidal, Marc
Language:English
Date of Publication (YYYY-MM-DD):2009-01
Title of Journal:Nature Methods
Volume:6
Issue / Number:1
Start Page:83
End Page:90
Copyright:© 2009 Nature Publishing Group
Review Status:not specified
Audience:Experts Only
Abstract / Description: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 approx130,000 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.
Comment of the Author/Creator:email: ewanker@mdc-berlin.de
External Publication Status:published
Document Type:Article
Communicated by:OWL-Group
Affiliations:MPI für molekulare Genetik
External Affiliations:Center for Cancer Systems Biology and Department of Cancer Biology, Dana-Farber Cancer Institute, 1 Jimmy Fund Way, Boston, Massachusetts 02115, USA
Department of Genetics, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, Massachusetts 02115, USA
Center for Complex Network Research and Department of Physics, University of Notre Dame, 225 Nieuwland Science Hall, Notre Dame, Indiana 46556, USA
The Simons Center for Systems Biology, Institute for Advanced Study, Einstein Drive, Princeton, New Jersey 08540, USA
Max Delbrück Center for Molecular Medicine, Robert-Roessle-Strasse 10, D-13125 Berlin, Germany
Department of Medical Protein Research, Vlaams Instituut voor Biotechnologie, and Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Albert Baertsoenkaai 3, 9000 Ghent, Belgium
Banting and Best Department of Medical Research and Department of Molecular Genetics, Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, 160 College Street, Toronto, Ontario M5S 3E1, Canada
Department of Physics, Korea University, 1 Anam-dong 5-ga, Seongbuk-gu, Seoul 136-713, Korea
School of Engineering and Applied Sciences, Harvard University, 29 Oxford Street, Cambridge, Massachusetts 02138, USA
Department of Biochemistry and Molecular Pharmacology, Harvard Medical School, 250 Longwood Avenue, Boston, Massachusetts 02115, USA
Identifiers:DOI:10.1038/nmeth.1280
ISSN:1548-7091
URL:http://www.nature.com/nmeth/journal/v6/n1/pdf/nmet...
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