Establishment of a TGFβ-induced post-transcriptional EMT gene signature
A major challenge in the clinical management of human cancers is to accurately stratify patients according to risk and likelihood of a favorable response. Stratification is confounded by significant phenotypic heterogeneity in some tumor types, often without obvious criteria for subdivision. Despite...
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description | A major challenge in the clinical management of human cancers is to accurately stratify patients according to risk and likelihood of a favorable response. Stratification is confounded by significant phenotypic heterogeneity in some tumor types, often without obvious criteria for subdivision. Despite intensive transcriptional array analyses, the identity and validation of cancer specific 'signature genes' remains elusive, partially because the transcriptome does not mirror the proteome. The simplification associated with transcriptomic profiling does not take into consideration changes in the relative expression among transcripts that arise due to post-transcriptional regulatory events. We have previously shown that TGFβ post-transcriptionally regulates epithelial-mesenchymal transition (EMT) by causing increased expression of two transcripts, Dab2 and ILEI, by modulating hnRNP E1 phosphorylation. Using a genome-wide combinatorial approach involving expression profiling and RIP-Chip analysis, we have identified a cohort of translationally regulated mRNAs that are induced during TGFβ-mediated EMT. Coordinated translational regulation by hnRNP E1 constitutes a post-transcriptional regulon inhibiting the expression of related EMT-facilitating genes, thus enabling the cell to rapidly and coordinately regulate multiple EMT-facilitating genes. |
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Stratification is confounded by significant phenotypic heterogeneity in some tumor types, often without obvious criteria for subdivision. Despite intensive transcriptional array analyses, the identity and validation of cancer specific 'signature genes' remains elusive, partially because the transcriptome does not mirror the proteome. The simplification associated with transcriptomic profiling does not take into consideration changes in the relative expression among transcripts that arise due to post-transcriptional regulatory events. We have previously shown that TGFβ post-transcriptionally regulates epithelial-mesenchymal transition (EMT) by causing increased expression of two transcripts, Dab2 and ILEI, by modulating hnRNP E1 phosphorylation. Using a genome-wide combinatorial approach involving expression profiling and RIP-Chip analysis, we have identified a cohort of translationally regulated mRNAs that are induced during TGFβ-mediated EMT. Coordinated translational regulation by hnRNP E1 constitutes a post-transcriptional regulon inhibiting the expression of related EMT-facilitating genes, thus enabling the cell to rapidly and coordinately regulate multiple EMT-facilitating genes.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0052624</identifier><identifier>PMID: 23285117</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animals ; Base Sequence ; Biochemistry ; Biology ; Cancer ; Cluster Analysis ; Combinatorial analysis ; EMT gene ; Epithelial-Mesenchymal Transition - genetics ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation - drug effects ; Genes ; Genomes ; Genomics ; Heterogeneous-Nuclear Ribonucleoproteins - metabolism ; Identification ; Kinases ; Medicine ; Mesenchyme ; Metastasis ; Mice ; Molecular biology ; Nucleic Acid Conformation ; Phosphorylation ; Post-transcription ; Protein Binding ; Protein Biosynthesis ; Proteomes ; Proteomics ; Reproducibility of Results ; Response Elements ; RNA Processing, Post-Transcriptional - drug effects ; RNA, Messenger - chemistry ; RNA, Messenger - genetics ; RNA, Messenger - metabolism ; Transforming Growth Factor beta - pharmacology ; Yeast</subject><ispartof>PloS one, 2012-12, Vol.7 (12), p.e52624</ispartof><rights>2012 Hussey et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License: https://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2012 Hussey et al 2012 Hussey et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c526t-91d12ad5ac7cd311743f6c8e6950069a7af895daa8f9d193430760583b2289393</citedby><cites>FETCH-LOGICAL-c526t-91d12ad5ac7cd311743f6c8e6950069a7af895daa8f9d193430760583b2289393</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3527574/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3527574/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,864,885,2102,2928,23866,27924,27925,53791,53793,79600,79601</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23285117$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Katz, Elad</contributor><creatorcontrib>Hussey, George S</creatorcontrib><creatorcontrib>Link, Laura A</creatorcontrib><creatorcontrib>Brown, Andrew S</creatorcontrib><creatorcontrib>Howley, Breege V</creatorcontrib><creatorcontrib>Chaudhury, Arindam</creatorcontrib><creatorcontrib>Howe, Philip H</creatorcontrib><title>Establishment of a TGFβ-induced post-transcriptional EMT gene signature</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>A major challenge in the clinical management of human cancers is to accurately stratify patients according to risk and likelihood of a favorable response. Stratification is confounded by significant phenotypic heterogeneity in some tumor types, often without obvious criteria for subdivision. Despite intensive transcriptional array analyses, the identity and validation of cancer specific 'signature genes' remains elusive, partially because the transcriptome does not mirror the proteome. The simplification associated with transcriptomic profiling does not take into consideration changes in the relative expression among transcripts that arise due to post-transcriptional regulatory events. We have previously shown that TGFβ post-transcriptionally regulates epithelial-mesenchymal transition (EMT) by causing increased expression of two transcripts, Dab2 and ILEI, by modulating hnRNP E1 phosphorylation. Using a genome-wide combinatorial approach involving expression profiling and RIP-Chip analysis, we have identified a cohort of translationally regulated mRNAs that are induced during TGFβ-mediated EMT. Coordinated translational regulation by hnRNP E1 constitutes a post-transcriptional regulon inhibiting the expression of related EMT-facilitating genes, thus enabling the cell to rapidly and coordinately regulate multiple EMT-facilitating genes.</description><subject>Animals</subject><subject>Base Sequence</subject><subject>Biochemistry</subject><subject>Biology</subject><subject>Cancer</subject><subject>Cluster Analysis</subject><subject>Combinatorial analysis</subject><subject>EMT gene</subject><subject>Epithelial-Mesenchymal Transition - genetics</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation - drug effects</subject><subject>Genes</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Heterogeneous-Nuclear Ribonucleoproteins - metabolism</subject><subject>Identification</subject><subject>Kinases</subject><subject>Medicine</subject><subject>Mesenchyme</subject><subject>Metastasis</subject><subject>Mice</subject><subject>Molecular biology</subject><subject>Nucleic Acid Conformation</subject><subject>Phosphorylation</subject><subject>Post-transcription</subject><subject>Protein Binding</subject><subject>Protein Biosynthesis</subject><subject>Proteomes</subject><subject>Proteomics</subject><subject>Reproducibility of Results</subject><subject>Response Elements</subject><subject>RNA Processing, Post-Transcriptional - 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Stratification is confounded by significant phenotypic heterogeneity in some tumor types, often without obvious criteria for subdivision. Despite intensive transcriptional array analyses, the identity and validation of cancer specific 'signature genes' remains elusive, partially because the transcriptome does not mirror the proteome. The simplification associated with transcriptomic profiling does not take into consideration changes in the relative expression among transcripts that arise due to post-transcriptional regulatory events. We have previously shown that TGFβ post-transcriptionally regulates epithelial-mesenchymal transition (EMT) by causing increased expression of two transcripts, Dab2 and ILEI, by modulating hnRNP E1 phosphorylation. Using a genome-wide combinatorial approach involving expression profiling and RIP-Chip analysis, we have identified a cohort of translationally regulated mRNAs that are induced during TGFβ-mediated EMT. 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subjects | Animals Base Sequence Biochemistry Biology Cancer Cluster Analysis Combinatorial analysis EMT gene Epithelial-Mesenchymal Transition - genetics Gene expression Gene Expression Profiling Gene Expression Regulation - drug effects Genes Genomes Genomics Heterogeneous-Nuclear Ribonucleoproteins - metabolism Identification Kinases Medicine Mesenchyme Metastasis Mice Molecular biology Nucleic Acid Conformation Phosphorylation Post-transcription Protein Binding Protein Biosynthesis Proteomes Proteomics Reproducibility of Results Response Elements RNA Processing, Post-Transcriptional - drug effects RNA, Messenger - chemistry RNA, Messenger - genetics RNA, Messenger - metabolism Transforming Growth Factor beta - pharmacology Yeast |
title | Establishment of a TGFβ-induced post-transcriptional EMT gene signature |
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