Title :
Enriching miRNA binding site specificity with sequence profile based filtering of 3´-UTR region of mRNA
Author :
Banwait, J.K. ; Ali, Hamza ; Bastola, Dhundy K.
Author_Institution :
Coll. of Inf. Sci. & Technol., Univ. of Nebraska at Omaha, Omaha, NE, USA
Abstract :
MicroRNAs are small (approx. 22nt) noncoding RNAs that regulate gene expression by either degrading messenger-RNA (mRNA) that has already been transcribed or by repressing the translation of mRNA. This mechanism of gene regulation by binding of the miRNA to 3-prime-UTR of target mRNAs has been recently discovered and sequence-specific post-transcriptional gene regulation process affects large set of genes involved in number of biological pathways. Mapping of 7nt long miRNAseed sequence to the target gene has been a standard way of predicting miRNA targets. In this study, we have generated a profile-based filter to increase the specificity of human miRNA-mRNA relationship thereby enriching true-positive miRNA target sitesin humans based on sequence information.
Keywords :
RNA; biology computing; filtering theory; genetics; molecular biophysics; molecular configurations; 3´-UTR region filtering; 3-prime-UTR; biological pathways; gene expression; human miRNA-mRNA relationship; mRNA translation; messenger-RNA; miRNA binding site specificity; miRNAseed sequence; noncoding RNAs; profile-based filter; sequence information; sequence profile; sequence-specific post-transcriptional gene regulation process; true-positive miRNA target sitesin humans; Databases; Hidden Markov models; Humans; Information filters; RNA; gene regulation; miRNA; microRNA; non-coding RNAs; target prediction;
Conference_Titel :
Bioinformatics and Biomedicine Workshops (BIBMW), 2012 IEEE International Conference on
Conference_Location :
Philadelphia, PA
Print_ISBN :
978-1-4673-2746-6
Electronic_ISBN :
978-1-4673-2744-2
DOI :
10.1109/BIBMW.2012.6470200
