{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,19]],"date-time":"2026-03-19T01:02:06Z","timestamp":1773882126514,"version":"3.50.1"},"reference-count":33,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":2074,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2011,3,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Epistatic Miniarray Profiles (EMAP) has enabled the mapping of large-scale genetic interaction networks; however, the quantitative information gained from EMAP cannot be fully exploited since the data are usually interpreted as a discrete network based on an arbitrary hard threshold. To address such limitations, we adopted a mixture modeling procedure to construct a probabilistic genetic interaction network and then implemented a Bayesian approach to identify densely interacting modules in the probabilistic network.<\/jats:p>\n               <jats:p>Results: Mixture modeling has been demonstrated as an effective soft-threshold technique of EMAP measures. The Bayesian approach was applied to an EMAP dataset studying the early secretory pathway in Saccharomyces cerevisiae. Twenty-seven modules were identified, and 14 of those were enriched by gold standard functional gene sets. We also conducted a detailed comparison with state-of-the-art algorithms, hierarchical cluster and Markov clustering. The experimental results show that the Bayesian approach outperforms others in efficiently recovering biologically significant modules.<\/jats:p>\n               <jats:p>Contact: \u00a0dengmh@pku.edu.cn; fangtingli@pku.edu.cn; zhuyp@hupo.org.cn<\/jats:p>\n               <jats:p>Supplementary Information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btr031","type":"journal-article","created":{"date-parts":[[2011,1,29]],"date-time":"2011-01-29T02:52:41Z","timestamp":1296269561000},"page":"853-859","source":"Crossref","is-referenced-by-count":9,"title":["Modular analysis of the probabilistic genetic interaction network"],"prefix":"10.1093","volume":"27","author":[{"given":"Lin","family":"Hou","sequence":"first","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"},{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"},{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lin","family":"Wang","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Minping","family":"Qian","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"},{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dong","family":"Li","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chao","family":"Tang","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"},{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yunping","family":"Zhu","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Minghua","family":"Deng","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"},{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China, 4Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158, USA and 5School of Physics, Peking University, Beijing 100871, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fangting","family":"Li","sequence":"additional","affiliation":[{"name":"1 LMAM, School of Mathematical Sciences, 2Center for Theoretical Biology, Peking University, Beijing 100871, 3State Key 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