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Article: ProteoMirExpress: inferring microRNA and protein-centered regulatory networks from high-throughput proteomic and mRNA expression data

TitleProteoMirExpress: inferring microRNA and protein-centered regulatory networks from high-throughput proteomic and mRNA expression data
Authors
Issue Date2013
PublisherAmerican Society for Biochemistry and Molecular Biology, Inc. The Journal's web site is located at http://www.mcponline.org/
Citation
Molecular and Cellular Proteomics, 2013, v. 12 n. 11, p. 3379-3387 How to Cite?
AbstractMicroRNAs (miRNAs) regulate gene expression through translational repression and RNA degradation. Recently developed high-throughput proteomic methods measure gene expression changes at protein level and therefore can reveal the direct effects of miRNAs' translational repression. Here, we present a web server, ProteoMir- Express, that integrates proteomic and mRNA expression data together to infer miRNA-centered regulatory networks. With both types of high-throughput data from the users, ProteoMirExpress is able to discover not only miRNA targets that have decreased mRNA, but also subgroups of targets with suppressed proteins whose mRNAs are not significantly changed or with decreased mRNA whose proteins are not significantly changed, which are usually ignored by most current methods. Furthermore, both direct and indirect targets of miRNAs can be detected. Therefore, ProteoMirExpress provides more comprehensive miRNA-centered regulatory networks. We used several published data to assess the quality of our inferred networks and prove the value of our server. ProteoMirExpress is available online, with free access to academic users. © 2013 by The American Society for Biochemistry and Molecular Biology, Inc.
Persistent Identifierhttp://hdl.handle.net/10722/185601
ISSN
2015 Impact Factor: 5.912
2015 SCImago Journal Rankings: 3.213
PubMed Central ID
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorQIN, J-
dc.contributor.authorLI, MJ-
dc.contributor.authorWANG, P-
dc.contributor.authorWong, NS-
dc.contributor.authorWong, MP-
dc.contributor.authorXia, Z-
dc.contributor.authorTsao, GSW-
dc.contributor.authorZhang, MQ-
dc.contributor.authorWang, JJ-
dc.date.accessioned2013-08-20T11:33:42Z-
dc.date.available2013-08-20T11:33:42Z-
dc.date.issued2013-
dc.identifier.citationMolecular and Cellular Proteomics, 2013, v. 12 n. 11, p. 3379-3387-
dc.identifier.issn1535-9476-
dc.identifier.urihttp://hdl.handle.net/10722/185601-
dc.description.abstractMicroRNAs (miRNAs) regulate gene expression through translational repression and RNA degradation. Recently developed high-throughput proteomic methods measure gene expression changes at protein level and therefore can reveal the direct effects of miRNAs' translational repression. Here, we present a web server, ProteoMir- Express, that integrates proteomic and mRNA expression data together to infer miRNA-centered regulatory networks. With both types of high-throughput data from the users, ProteoMirExpress is able to discover not only miRNA targets that have decreased mRNA, but also subgroups of targets with suppressed proteins whose mRNAs are not significantly changed or with decreased mRNA whose proteins are not significantly changed, which are usually ignored by most current methods. Furthermore, both direct and indirect targets of miRNAs can be detected. Therefore, ProteoMirExpress provides more comprehensive miRNA-centered regulatory networks. We used several published data to assess the quality of our inferred networks and prove the value of our server. ProteoMirExpress is available online, with free access to academic users. © 2013 by The American Society for Biochemistry and Molecular Biology, Inc.-
dc.languageeng-
dc.publisherAmerican Society for Biochemistry and Molecular Biology, Inc. The Journal's web site is located at http://www.mcponline.org/-
dc.relation.ispartofMolecular and Cellular Proteomics-
dc.rightsMolecular and Cellular Proteomics. Copyright © American Society for Biochemistry and Molecular Biology, Inc.-
dc.rightsThis research was originally published in [Journal Name]. Author(s). Title. Journal Name. Year. Vol:pp-pp. © the American Society for Biochemistry and Molecular Biology-
dc.titleProteoMirExpress: inferring microRNA and protein-centered regulatory networks from high-throughput proteomic and mRNA expression data-
dc.typeArticle-
dc.identifier.emailWong, NS: nswong@hku.hk-
dc.identifier.emailWong, MP: mwpik@hku.hk-
dc.identifier.emailXia, Z: zyxia@hkucc.hku.hk-
dc.identifier.emailTsao, GSW: gswtsao@hku.hk-
dc.identifier.emailWang, JJ: junwen@hku.hk-
dc.identifier.authorityWong, NS=rp00340-
dc.identifier.authorityWong, MP=rp00348-
dc.identifier.authorityXia, Z=rp00532-
dc.identifier.authorityTsao, GSW=rp00399-
dc.identifier.authorityWang, JJ=rp00280-
dc.description.naturelink_to_OA_fulltext-
dc.identifier.doi10.1074/mcp.O112.019851-
dc.identifier.pmid23924514-
dc.identifier.pmcidPMC3820948-
dc.identifier.scopuseid_2-s2.0-84887098104-
dc.identifier.hkuros220849-
dc.identifier.volume12-
dc.identifier.issue11-
dc.identifier.spage3379-
dc.identifier.epage3387-
dc.identifier.isiWOS:000328816000029-
dc.publisher.placeUnited States-

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