{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,8]],"date-time":"2026-05-08T07:02:08Z","timestamp":1778223728333,"version":"3.51.4"},"reference-count":46,"publisher":"American Association for the Advancement of Science (AAAS)","issue":"5898","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Science"],"published-print":{"date-parts":[[2008,10,3]]},"abstract":"<jats:p>Current yeast interactome network maps contain several hundred molecular complexes with limited and somewhat controversial representation of direct binary interactions. We carried out a comparative quality assessment of current yeast interactome data sets, demonstrating that high-throughput yeast two-hybrid (Y2H) screening provides high-quality binary interaction information. Because a large fraction of the yeast binary interactome remains to be mapped, we developed an empirically controlled mapping framework to produce a \u201csecond-generation\u201d high-quality, high-throughput Y2H data set covering \u223c20% of all yeast binary interactions. Both Y2H and affinity purification followed by mass spectrometry (AP\/MS) data are of equally high quality but of a fundamentally different and complementary nature, resulting in networks with different topological and biological properties. Compared to co-complex interactome models, this binary map is enriched for transient signaling interactions and intercomplex connections with a highly significant clustering between essential proteins. Rather than correlating with essentiality, protein connectivity correlates with genetic pleiotropy.<\/jats:p>","DOI":"10.1126\/science.1158684","type":"journal-article","created":{"date-parts":[[2008,8,21]],"date-time":"2008-08-21T21:53:52Z","timestamp":1219355632000},"page":"104-110","source":"Crossref","is-referenced-by-count":1213,"title":["High-Quality Binary Protein Interaction Map of the Yeast Interactome Network"],"prefix":"10.1126","volume":"322","author":[{"given":"Haiyuan","family":"Yu","sequence":"first","affiliation":[{"name":"Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA 02115, USA."},{"name":"Department of Cancer Biology, Dana-Farber Cancer Institute, and Department of Genetics, Harvard Medical School, Boston, MA 02115, USA."},{"name":"School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138, USA."},{"name":"Department of Medical Protein Research, VIB, and Department of Biochemistry, Faculty of Medicine and 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Keck Foundation (M.V. and F.P.R.); by Institute Sponsored Research funds from the Dana-Farber Cancer Institute Strategic Initiative (M.V. and CCSB); by NIH grant R01-HG001715 (M.V. and F.P.R.); by NIH grants U01-A1070499-01 and U56-CA113004 (A.-L.B.); by grant GOA12051401 from the University of Ghent and grant FWO-V G.0031.06 from the Fund for Scientific Research Flanders (J.T.); by a grant from the National Cancer Institute of Canada (C.B.); and by NIH grant HG003224 (F.P.R.). I.L. is a postdoctoral fellow with the Fonds Wetenschappelijk Onderzoek\u2013Vlanderen. M.V. is a \u201cChercheur Qualifi\u00e9 Honoraire\u201d from the Fonds de la Recherche Scientifique (FRS-FNRS French Community of Belgium). We thank members of our laboratories for helpful discussions and Agencourt Biosciences for sequencing assistance. 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