Vir-Mir-db Tool name | Vir-Mir-db |
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URL | http://alk.ibms.sinica.edu.tw |
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Important features | Web based resource that allows a user to explore predicted viral microRNA hairpins and their corresponding host target gene. |
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Citations | Li SC, Shiau CK, Lin WC. Vir-Mir db: prediction of viral microRNA candidate
hairpins. Nucleic Acids Res. 2008 Jan;36(Database issue):D184-9. Epub 2007 Aug
15. PubMed PMID: 17702763 |
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Year of publication | 2008 |
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Rank by usage frequency | 100 |
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Comments | |
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Function | 1.1 FIND microRNA: precursor, SPECIES: rat, SPECIES: zebrafish, SPECIES: virus, http://alk.ibms.sinica.edu.tw, Web based resource that allows a user to explore predicted viral microRNA hairpins and their corresponding host target gene., Li SC- Shiau CK- Lin WC. Vir-Mir db: prediction of viral microRNA candidate
hairpins. Nucleic Acids Res. 2008 Jan;36(Database issue):D184-9. Epub 2007 Aug
15. PubMed PMID: 17702763, 2008, 100, Online/ downloadable , I. SPECIES SUPPORTED INCLUDE: human- mouse- rat- zebrafish- rice and Arabidopsis. II. QUERY OR INPUT DATA: 1. Query by GenBank Id.- RefSeq Acc.- or viral scientific name 2. Select 5'arm or 3'arm of chosen virus data for target gene prediction using RNAhybrid Service Page
III. OUTPUT DATA: predicted viral microRNA with details on start position- length- sRNA loop score- core MFE and 5' arm- 3' arm details for target prediction in host genome or to match own genomic region. RNAhybrid prediction results are sent via email. IV. ADDITIONAL INFORMATION: The targets are identified by utilizing RNAhybrid program and 3' UTR gene sequences of human- mouse- rat- zebrafish- rice and Arabidopsis. |
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