Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA

Jasjit K. Banwait, Hesham H Ali, Dhundy Raj Bastola

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

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.

Original languageEnglish (US)
Title of host publicationProceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012
Pages558-563
Number of pages6
DOIs
StatePublished - Dec 1 2012
Event2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012 - Philadelphia, PA, United States
Duration: Oct 4 2012Oct 7 2012

Publication series

NameProceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012

Conference

Conference2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012
CountryUnited States
CityPhiladelphia, PA
Period10/4/1210/7/12

Fingerprint

3' Untranslated Regions
Binding sites
MicroRNAs
Binding Sites
Gene expression
Messenger RNA
Genes
RNA
Untranslated RNA
Gene Expression

Keywords

  • gene regulation
  • miRNA
  • microRNA
  • non-coding RNAs
  • target prediction

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics

Cite this

Banwait, J. K., Ali, H. H., & Bastola, D. R. (2012). Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA. In Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012 (pp. 558-563). [6470200] (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012). https://doi.org/10.1109/BIBMW.2012.6470200

Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA. / Banwait, Jasjit K.; Ali, Hesham H; Bastola, Dhundy Raj.

Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012. 2012. p. 558-563 6470200 (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Banwait, JK, Ali, HH & Bastola, DR 2012, Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA. in Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012., 6470200, Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012, pp. 558-563, 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012, Philadelphia, PA, United States, 10/4/12. https://doi.org/10.1109/BIBMW.2012.6470200
Banwait JK, Ali HH, Bastola DR. Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA. In Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012. 2012. p. 558-563. 6470200. (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012). https://doi.org/10.1109/BIBMW.2012.6470200
Banwait, Jasjit K. ; Ali, Hesham H ; Bastola, Dhundy Raj. / Enriching miRNA binding site specificity with sequence profile based filtering of 3'-UTR region of mRNA. Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012. 2012. pp. 558-563 (Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012).
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