MiRs
From HP-SEE Wiki
Contents |
General Information
- Application's name: Searching for novel miRNA genes and their targets
- Virtual Research Community: Life Sciences
- Scientific contact: Dr. Panayiota Poirazi, poirazi@imbb.forth.gr
- Technical contact: Dr Anastasis Oulas, oulas@imbb.forth.gr
- Developers: Dr Anastasis Oulas, IMBB, FORTH, Greece
- Web site: http://www.imbb.forth.gr/people/poirazi/drupal/?q=node/6/
Short Description
The mode of action of the mature miRNA in mammalian systems is dependent on complementary base pairing to the 3’UTR region of the target mRNA, thereafter causing the inhibition of translation and/or the degradation of the mRNA. Despite the body of evidence supporting a role of miRNAs in numerous molecular processes and diseases, their exact mechanism of action remains to be elucidated because the downstream targets of miRNAs implicated in these prcesses have yet to be defined. Towards this goal, miRNA target prediction tools can offer a first assessment as to which target genes are regulated by miRNAs, thus providing new insights regarding their specific functions and guiding future experiments.
There is great need for a more sophisticated target prediction tool that achieves an inmprved balance between sensitivity and specificity. In order to maximize sensitivity and specificity to the extent that outperforms existing target prediction tools, we implement a new target prediction tool using Hidden Markov Models (HMM). The first step for the successful implementation of this tool is the selection of significant biological features that are implicated in the miRNA::mRNA interaction. Once again careful training and validation has to be performed to obtain statistical evidence for the prediction accuracy of our tool. We have validated our methodology and are now ready to utilize it to scan all human 3’UTR regions for novel miRNA targets. This prediction pipeline will require a great deal of computational power in order to minimize CPU time.
Problems Solved
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Scientific and Social Impact
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Collaborations and Beneficiaries
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Technical Features and HP-SEE Implementation
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Usage Example
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Publications
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