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In silico prediction of cellular gene targets of herpesvirus encoded microRNAs
Herpesviruses have evolved to encode multiple microRNAs [viral miRNAs (v-miRs)], a unique feature of this family of double stranded DNA (dsDNA) viruses. However, functional role of these v-miRs in host-pathogen interaction remains poorly studied. In this data, we examined the impact of oral disease...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5993014/ https://www.ncbi.nlm.nih.gov/pubmed/29892642 http://dx.doi.org/10.1016/j.dib.2018.05.020 |
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author | Naqvi, Afsar R. Seal, Alexandra Shango, Jennifer Shukla, Deepak Nares, Salvador |
author_facet | Naqvi, Afsar R. Seal, Alexandra Shango, Jennifer Shukla, Deepak Nares, Salvador |
author_sort | Naqvi, Afsar R. |
collection | PubMed |
description | Herpesviruses have evolved to encode multiple microRNAs [viral miRNAs (v-miRs)], a unique feature of this family of double stranded DNA (dsDNA) viruses. However, functional role of these v-miRs in host-pathogen interaction remains poorly studied. In this data, we examined the impact of oral disease associated v-miRs viz., miR-H1 [encoded by herpes simplex virus 1 (HSV1)] and miR-K12-3 [encoded by Kaposi sarcoma-associated herpesvirus (KSHV)] by identifying putative targets of viral miRNAs. We used our published microarray data (GSE107005) to identify the transcripts downregulated by the v-miRs. The 3′ untranslated region (UTR) of these genes were extracted using BioMart tool on Ensembl and subjected to RNA:RNA interaction employing RNA Hybrid. We obtained hundreds of potential and novel miR-H1 and miR-K12-3 binding sites on the 3′UTR of the genes downregulated by these v-miRs. The information can provide likely regulatory mechanisms of the candidate v-miRs through which they can exert biological impact during herpesvirus infection and pathogenesis. |
format | Online Article Text |
id | pubmed-5993014 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-59930142018-06-11 In silico prediction of cellular gene targets of herpesvirus encoded microRNAs Naqvi, Afsar R. Seal, Alexandra Shango, Jennifer Shukla, Deepak Nares, Salvador Data Brief Genetics, Genomics and Molecular Biology Herpesviruses have evolved to encode multiple microRNAs [viral miRNAs (v-miRs)], a unique feature of this family of double stranded DNA (dsDNA) viruses. However, functional role of these v-miRs in host-pathogen interaction remains poorly studied. In this data, we examined the impact of oral disease associated v-miRs viz., miR-H1 [encoded by herpes simplex virus 1 (HSV1)] and miR-K12-3 [encoded by Kaposi sarcoma-associated herpesvirus (KSHV)] by identifying putative targets of viral miRNAs. We used our published microarray data (GSE107005) to identify the transcripts downregulated by the v-miRs. The 3′ untranslated region (UTR) of these genes were extracted using BioMart tool on Ensembl and subjected to RNA:RNA interaction employing RNA Hybrid. We obtained hundreds of potential and novel miR-H1 and miR-K12-3 binding sites on the 3′UTR of the genes downregulated by these v-miRs. The information can provide likely regulatory mechanisms of the candidate v-miRs through which they can exert biological impact during herpesvirus infection and pathogenesis. Elsevier 2018-05-19 /pmc/articles/PMC5993014/ /pubmed/29892642 http://dx.doi.org/10.1016/j.dib.2018.05.020 Text en © 2018 The Authors http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Genetics, Genomics and Molecular Biology Naqvi, Afsar R. Seal, Alexandra Shango, Jennifer Shukla, Deepak Nares, Salvador In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title | In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title_full | In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title_fullStr | In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title_full_unstemmed | In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title_short | In silico prediction of cellular gene targets of herpesvirus encoded microRNAs |
title_sort | in silico prediction of cellular gene targets of herpesvirus encoded micrornas |
topic | Genetics, Genomics and Molecular Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5993014/ https://www.ncbi.nlm.nih.gov/pubmed/29892642 http://dx.doi.org/10.1016/j.dib.2018.05.020 |
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