{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,8]],"date-time":"2026-01-08T00:22:02Z","timestamp":1767831722285,"version":"3.49.0"},"reference-count":57,"publisher":"Oxford University Press (OUP)","issue":"16","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2007,8,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Current high-throughput protein\u2013protein interaction (PPI) data do not provide information about the condition(s) under which the interactions occur. Thus, the identification of condition-responsive PPI sub-networks is of great importance for investigating how a living cell adapts to changing environments.<\/jats:p>\n               <jats:p>Results: In this article, we propose a novel edge-based scoring and searching approach to extract a PPI sub-network responsive to conditions related to some investigated gene expression profiles. Using this approach, what we constructed is a sub-network connected by the selected edges (interactions), instead of only a set of vertices (proteins) as in previous works. Furthermore, we suggest a systematic approach to evaluate the biological relevance of the identified responsive sub-network by its ability of capturing condition-relevant functional modules. We apply the proposed method to analyze a human prostate cancer dataset and a yeast cell cycle dataset. The results demonstrate that the edge-based method is able to efficiently capture relevant protein interaction behaviors under the investigated conditions.<\/jats:p>\n               <jats:p>Contact: \u00a0guoz@ems.hrbmu.edu.cn<\/jats:p>\n               <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btm294","type":"journal-article","created":{"date-parts":[[2007,6,2]],"date-time":"2007-06-02T00:34:41Z","timestamp":1180744481000},"page":"2121-2128","source":"Crossref","is-referenced-by-count":116,"title":["Edge-based scoring and searching method for identifying condition-responsive protein\u2013protein interaction sub-network"],"prefix":"10.1093","volume":"23","author":[{"given":"Zheng","family":"Guo","sequence":"first","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"},{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yongjin","family":"Li","sequence":"additional","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xue","family":"Gong","sequence":"additional","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chen","family":"Yao","sequence":"additional","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wencai","family":"Ma","sequence":"additional","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dong","family":"Wang","sequence":"additional","affiliation":[{"name":"1 Department of Bioinformatics, Bio-pharmaceutical Key Laboratory of Heilongjiang Province-Incubator of State Key Laboratory, Harbin Medical University, Harbin 150086 and 2Bioinformatics Centre and School of Life Science, University of Electronic Science and Technology of China, Chengdu, 610054, 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