Submit Manuscript | http://medcraveonline.com Abbreviations: Deep sequencing: NGS with a high number of replicate reads; GCR8: DiGeorge Syndrome Critical Region 8 Gene; isomiR: The variations of miRNA sequences around the published miRNA sequence at miRBASE, which is misleadingly referred to as gold standard database and due to this a major source of bias the author of this review claims; isomi...

Small RNAs are pivotal regulators of gene expression that guide transcriptional and post-transcriptional silencing mechanisms in eukaryotes, including plants. Here we report a comprehensive atlas of sRNA and miRNA from 3 species of algae and 31 representative species across vascular plants, including non-model plants. We sequence and quantify sRNAs from 99 different tissues or treatments across...

SUMMARY We describe miTRATA, the first web-based tool for microRNA Truncation and Tailing Analysis--the analysis of 3' modifications of microRNAs including the loss or gain of nucleotides relative to the canonical sequence. miTRATA is implemented in Python (version 3) and employs parallel processing modules to enhance its scalability when analyzing multiple small RNA (sRNA) sequencing datasets....

MicroRNAs (miRNAs) are small RNAs widely present in animals and plants and involved in post-transcriptional regulation of gene transcripts. In this study we identified and validated 58 miRNAs from an EST dataset of Spodoptera litura based on the computational and experimental analysis of sequence conservation and secondary structure of miRNA by comparing the miRNA sequences in the miRbase. RT-P...

MicroRNAs have been implicated for the regulation of gene expression. These miRNA are a class of single stranded non coding RNAs, formed from endogenous transcripts and measure typically about 19-25 nucleotides in length. They are important regulators of the various biological and metabolic functions taking place in humans. Many miRNAs show tissue specific expression. Human heart is a complex o...

Bioinformatics Analysis of Small RNA Libraries Small RNA sequences were stripped of the 3’ adaptor and mapped to the Drosophila release 5 genome (Ensembl/BDGP5.25) with up to 2 mismatch using Bowtie (version 1.0.0). Only uniquely mapped sequences were retained (this typically corresponds to roughly 76-85% of all obtained reads) for future analysis. For annotations, we used Flybase for protein c...

MicroRNAs are a newly discovered class of non-protein small RNAs with 22-24 nucleotides. They play multiple roles in biological processes including development, cell proliferation, apoptosis, stress responses and many other cell functions. In this research, several approaches were combined to make a computational prediction of potential miRNAs and their targets in Helianthus annuus (H. annuus)....

Since the inception of deep sequencing, isomiRs are consistently observed to be produced by most miRNA genes in a variety of cell types. IsomiRs appear as a variation in length from the canonical sequence annotated in miRBase, due to an addition or deletion of one or more nucleotides at the 5(') or 3(') ends or both. As the seed sequence is located at the 5(') end of the microRNA, the target mR...

Over 2000 microRNA (miRNA) sequences from different species have been submitted to the miRBase, the central online repository for miRNAs, making a total of 5071 miRNA loci, expressing 5922 distinct mature miRNA sequences. In this review, we have addressed the importance of the genetic variations in humans affecting miRNAs, their target genes and the genes involved in miRNA processing for indivi...

Abstract MicroRNAs (miRNAs) are a deeply conserved class of small, single stranded RNA molecules that post-transcriptionally regulate mRNA levels via several targeted degradation pathways. They involved in wide variety biological processes and have been used to infer the deep evolutionary relationships major groups such as Metazoa. Here we surveyed adult tissues freshwater pulmonate Lymnaea sta...