{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T23:27:56Z","timestamp":1773271676879,"version":"3.50.1"},"reference-count":36,"publisher":"Oxford University Press (OUP)","issue":"7","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,4,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Motivation: Large amounts of protein and domain interaction data are being produced by experimental high-throughput techniques and computational approaches. To gain insight into the value of the provided data, we used our new similarity measure based on the Gene Ontology (GO) to evaluate the molecular functions and biological processes of interacting proteins or domains. The applied measure particularly addresses the frequent annotation of proteins or domains with multiple GO terms.<\/jats:p><jats:p>Results: Using our similarity measure, we compare predicted domain\u2013domain and human protein\u2013protein interactions with experimentally derived interactions. The results show that our similarity measure is of significant benefit in quality assessment and confidence ranking of domain and protein networks. We also derive useful confidence score thresholds for dividing domain interaction predictions into subsets of low and high confidence.<\/jats:p><jats:p>Contact: \u00a0mario.albrecht@mpi-inf.mpg.de<\/jats:p><jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm012","type":"journal-article","created":{"date-parts":[[2007,4,24]],"date-time":"2007-04-24T17:01:46Z","timestamp":1177434106000},"page":"859-865","source":"Crossref","is-referenced-by-count":35,"title":["Functional evaluation of domain\u2013domain interactions and human protein interaction networks"],"prefix":"10.1093","volume":"23","author":[{"given":"Andreas","family":"Schlicker","sequence":"first","affiliation":[{"name":"Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbr\u00fccken, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carola","family":"Huthmacher","sequence":"additional","affiliation":[{"name":"Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbr\u00fccken, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fidel","family":"Ram\u00edrez","sequence":"additional","affiliation":[{"name":"Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbr\u00fccken, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thomas","family":"Lengauer","sequence":"additional","affiliation":[{"name":"Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbr\u00fccken, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mario","family":"Albrecht","sequence":"additional","affiliation":[{"name":"Department of Computational Biology and Applied Algorithmics, Max Planck Institute for Informatics, Stuhlsatzenhausweg 85, 66123 Saarbr\u00fccken, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2007,4,1]]},"reference":[{"key":"2023041108115189900_","doi-asserted-by":"crossref","first-page":"292","DOI":"10.1016\/j.sbi.2004.05.003","article-title":"Protein interaction networks from yeast to human","volume":"14","author":"Bork","year":"2004","journal-title":"Curr. 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