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MiRseqViewer: Multi-panel visualization of sequence, structure and expression for analysis of microRNA sequencing data

Title
MiRseqViewer: Multi-panel visualization of sequence, structure and expression for analysis of microRNA sequencing data
Authors
Jang I.Chang H.Jun Y.Park S.Yang J.O.Lee B.Kim W.Narry Kim V.Lee S.
Ewha Authors
이상혁김완규
SCOPUS Author ID
이상혁scopus; 김완규scopus
Issue Date
2015
Journal Title
Bioinformatics
ISSN
1367-4803JCR Link
Citation
vol. 31, no. 4, pp. 596 - 598
Publisher
Oxford University Press
Indexed
SCI; SCIE; SCOPUS WOS scopus
Abstract
Deep sequencing of small RNAs has become a routine process in recent years, but no dedicated viewer is as yet available to explore the sequence features simultaneously along with secondary structure and gene expression of microRNA (miRNA). We present a highly interactive application that visualizes the sequence alignment, secondary structure and normalized read counts in synchronousmultipanel windows. This helps users to easily examine the relationships between the structure of precursor and the sequences and abundance of final products and thereby will facilitate the studies on miRNA biogenesis and regulation. The project manager handles multiple samples of multiple groups. The read alignment is imported in BAM file format. Implemented features comprise sorting, zooming, highlighting, editing, filtering, saving, exporting, etc. Currently, miRseqViewer supports 84 organisms whose annotation is available at miRBase. © 2014 The Author.
DOI
10.1093/bioinformatics/btu676
Appears in Collections:
자연과학대학 > 생명과학전공 > Journal papers
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