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OncomiRdbB: a comprehensive database of microRNAs and their targets in breast cancer

Khurana, Rimpi, Verma, Vinod, Rawoof, Abdul, Tiwari, Shrish, Nair, Rekha A., Mahidhara, Ganesh, Idris, Mohammed M., Clarke, Alan Richard and Kumar, Lekha 2014. OncomiRdbB: a comprehensive database of microRNAs and their targets in breast cancer. BMC Bioinformatics 15 (1) , p. 15. 10.1186/1471-2105-15-15

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Abstract

Background: Given the estimate that 30% of our genes are controlled by microRNAs, it is essential that we understand the precise relationship between microRNAs and their targets. OncomiRs are microRNAs (miRNAs) that have been frequently shown to be deregulated in cancer. However, although several oncomiRs have been identified and characterized, there is as yet no comprehensive compilation of this data which has rendered it underutilized by cancer biologists. There is therefore an unmet need in generating bioinformatic platforms to speed the identification of novel therapeutic targets. Description: We describe here OncomiRdbB, a comprehensive database of oncomiRs mined from different existing databases for mouse and humans along with novel oncomiRs that we have validated in human breast cancer samples. The database also lists their respective predicted targets, identified using miRanda, along with their IDs, sequences, chromosome location and detailed description. This database facilitates querying by search strings including microRNA name, sequence, accession number, target genes and organisms. The microRNA networks and their hubs with respective targets at 3'UTR, 5'UTR and exons of different pathway genes were also deciphered using the 'R' algorithm. Conclusion: OncomiRdbB is a comprehensive and integrated database of oncomiRs and their targets in breast cancer with multiple query options which will help enhance both understanding of the biology of breast cancer and the development of new and innovative microRNA based diagnostic tools and targets of therapeutic significance.

Item Type: Article
Date Type: Published Online
Status: Published
Schools: Biosciences
European Cancer Stem Cell Research Institute (ECSCRI)
Subjects: Q Science > Q Science (General)
R Medicine > RC Internal medicine > RC0254 Neoplasms. Tumors. Oncology (including Cancer)
Publisher: BioMed Central
ISSN: 1471-2105
Date of First Compliant Deposit: 30 March 2016
Date of Acceptance: 2 January 2014
Last Modified: 20 Feb 2019 14:23
URI: http://orca.cf.ac.uk/id/eprint/58430

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