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OJBTM
Online Journal of Bioinformatics©
Established 1995
ISSN 1443-2250
Volume 23 (2):112-131,
2022.
Micro-RNA’s expressed
in brain and genes associated with amyotrophic lateral sclerosis.
Santosh P. Shinde, Neelima
Arora and Utpal Bhadra
Functional Genomics and Gene Silencing Group, Centre for Cellular
and Molecular Biology, Hyderabad-500007, India
Shinde SP, Arora N, Bhadra U., Micro-RNA’s expressed in brain and genes
associated with amyotrophic lateral sclerosis, Onl J Bioinform., 23 (2):112-131, 2022. Amyotrophic
Lateral Sclerosis (ALS) is a rare neurological disease affecting mainly motor
neurons and often leads to paralysis and death in extreme cases. Though the
number of patients of ALS is relatively small compared to other known
neurodegenerative diseases, it holds distinct importance owing to high fatality
among victims. Various mechanisms are proposed for the disease but exact
mechanism still remains a mystery. For
exploring the role of microRNAs in ALS disease genes regulation, miRanda (version1.0 b) was
employed for prediction of target sites of miRNAs expressed in various parts of
brain and CNS on 35 genes associated with ALS. MicroRNA target sites were
classified according to the position and the location of these sites were used
to infer their mode of action in target gene silencing. For verification,
similar search was conducted using TargetScan
(version (5.1) and PicTar for prediction of target
sites in 3´ UTR only. Target site hotspots were identified and were recognized
as hotspots for multiple miRNAs action, thus, acting as favored
sites of action for repression of gene expression. The complex interplay of
genes and miRNAs brought about by multiplicity and cooperativity was explored.
1456 target sites were predicted using miRanda.
Interestingly, target sites found in 5´ UTR and CDS region were more than those
found in 3´ UTR. 11 target sites were predicted to be common by all three
algorithms and thus, these represent most significant sites. This investigation
will aid in elucidating the mechanism of action of miRNAs for the considered
genes.