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Title: Elucidation of intronic miRNA mediated regulatory networks using in silico approaches
Researcher: Hariharan, Manoj
Guide(s): Brahmachari, Samir K
Keywords: Biotechnology, Biology, Genomics , Integrative Biology
Upload Date: 17-Aug-2011
University: University of Pune
Completed Date: 1/2/2009
Abstract: MicroRNAs (miRNAs) are regulatory RNAs which are 17-25 nucleotides long. They have the potential to bind to 3’ UTRs of mature transcripts, by means of incomplete complementarity, and reduce the translational ability of the target transcripts. More than 700 human miRNAs are known and each of them can target hundreds of target genes. Hence their scale of regulation is large. Many miRNAs have been found to be regulators of important pathways and biological processes. Several of them are associated with neoplasia and other diseases. miRNAs are generally known to arise from non-coding regions of the genome, while a significant number arise from within protein-coding genes. This study focuses on a class of miRNAs that are encoded in the introns of proteincoding genes (called “source genes”) which are also present in the same orientation as the source gene. This spatial arrangement of the miRNA offers an advantage of being coexpressed with the source gene. The synchronized expression of the intronic miRNA with the source gene enables it to target several transcripts while the source gene is also expressed. In a pathway where the source gene is involved, the miRNA could act as a silencing regulator on antagonistic genes involved in the pathway. We prioritize a set of intronic miRNAs that are conserved in human, chimpanzee and pig (termed conserved intronic miRNAs) for further exploration of this possibility. Genome-wide prediction of targets to the known human miRNAs was performed. Since the currently available miRNA target prediction tools are associated with large number of false positives, a consensus strategy was used. Only those miRNA-target pairs were selected which were predicted as targets by at least three software. The software used to predict the targets were miRanda, RNAhybrid and TargetScan. A database (TargetmiR) was developed as a warehouse of miRNA targets and their functional annotation. Transcription factors as targets to miRNAs would have a larger effect on the scale of regulatory networks since the genes regulated by them as well as other complexes formed due to interaction with the transcription factors also get affected. We studied this effect on a genomewide scale with transcription factors targeted by the conserved intronic miRNAs.
Pagination: 134p.
Appears in Departments:Institute of Genomics and Integrative Biology

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01_title.pdfAttached File40.38 kBAdobe PDFView/Open
02_certificate.pdf40.31 kBAdobe PDFView/Open
03_declaration.pdf39.92 kBAdobe PDFView/Open
04_dedication.pdf46.5 kBAdobe PDFView/Open
05_acknowledgement.pdf76.42 kBAdobe PDFView/Open
06_contents.pdf61.46 kBAdobe PDFView/Open
07_list of tables.pdf52.83 kBAdobe PDFView/Open
08_list of figures.pdf53.23 kBAdobe PDFView/Open
09_abbreviation.pdf49.66 kBAdobe PDFView/Open
10_details.pdf71.01 kBAdobe PDFView/Open
11_abstract.pdf61.2 kBAdobe PDFView/Open
12_list of publications.pdf90.75 kBAdobe PDFView/Open
13_chapter 1.pdf2.77 MBAdobe PDFView/Open
14_chapter 2.pdf819.43 kBAdobe PDFView/Open
15_chapter 3.pdf1.59 MBAdobe PDFView/Open
16_chapter 4.pdf1.58 MBAdobe PDFView/Open
17_chapter 5.pdf962.6 kBAdobe PDFView/Open
18_epilogue.pdf85 kBAdobe PDFView/Open
19_referennces.pdf147.5 kBAdobe PDFView/Open
20_appendices.pdf1.83 MBAdobe PDFView/Open

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