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In particular, viral and host miRNAs may also have mutual target genes. Based on published evidence linking viral and host miRNAs there are three modes of mutual regulation: competing, cooperating, and compensating modes.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>In this paper we explore the compensating mode of mutual regulation upon Human Cytomegalovirus (HCMV) infection, when host miRNAs are down regulated and viral miRNAs compensate by mimicking their function. To achieve this, we develop a new algorithm which finds groups, called<jats:italic>quasi-modules<\/jats:italic>, of viral and host miRNAs and their mutual target genes, and use a new host miRNA expression data for HCMV-infected and uninfected cells. For two of the reported quasi-modules, supporting evidence from biological and medical literature is provided.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>The modules found by our method may advance the understanding of the role of miRNAs in host-viral interactions, and the genes in these modules may serve as candidates for further experimental validation.<\/jats:p><\/jats:sec>","DOI":"10.1186\/1471-2105-13-322","type":"journal-article","created":{"date-parts":[[2012,12,3]],"date-time":"2012-12-03T19:41:52Z","timestamp":1354563712000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Finding quasi-modules of human and viral miRNAs: a case study of human cytomegalovirus (HCMV)"],"prefix":"10.1186","volume":"13","author":[{"given":"Isana","family":"Veksler-Lublinsky","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yonat","family":"Shemer-Avni","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eti","family":"Meiri","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zvi","family":"Bentwich","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Klara","family":"Kedem","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Michal","family":"Ziv-Ukelson","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2012,12,3]]},"reference":[{"key":"5710_CR1","unstructured":"miRBase [http:\/\/microrna.sanger.ac.uk\/] []"},{"key":"5710_CR2","doi-asserted-by":"crossref","unstructured":"Grundhoff A, Sullivan C: Virus-encoded microRNAs. 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