AASRA: an anchor alignment-based small RNA annotation pipeline

Small noncoding RNAs deep sequencing (sncRNA-Seq) has become a routine for sncRNA detection and quantification. However, the software packages currently available for sncRNA annotation can neither recognize sncRNA variants in the sequencing reads, nor annotate all known sncRNA simultaneously. Here,...

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Published inBiology of reproduction Vol. 105; no. 1; pp. 267 - 277
Main Authors Tang, Chong, Xie, Yeming, Guo, Mei, Yan, Wei
Format Journal Article
LanguageEnglish
Published United States Society for the Study of Reproduction 01.07.2021
Oxford University Press
Subjects
Animals
Annotations
bioinformatics
Computer programs
Documentation
Mice - genetics
MicroRNA
MicroRNAs - analysis
miRNA
Molecular Sequence Annotation - methods
Pipe lines
precursor microRNA
RESEARCH ARTICLE
Ribonucleic acid
RNA
RNA sequencing
RNA-Seq
sequence alignment
small RNA annotation
Software
sequence alignment
RNA-Seq
precursor microRNA
small RNA annotation
bioinformatics
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Summary:Small noncoding RNAs deep sequencing (sncRNA-Seq) has become a routine for sncRNA detection and quantification. However, the software packages currently available for sncRNA annotation can neither recognize sncRNA variants in the sequencing reads, nor annotate all known sncRNA simultaneously. Here, we report a novel anchor alignment-based small RNA annotation (AASRA) software package (https://github.com/biogramming/AASRA). AASRA represents an all-in-one sncRNA annotation pipeline, which allows for high-speed, simultaneous annotation of all known sncRNA species with the capability to distinguish mature from precursor microRNAs, and to identify novel sncRNA variants in the sncRNA-Seq sequencing reads.
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Chong Tang, Yeming Xie, and Mei Guo contributed equally to this work.
ISSN:0006-3363
1529-7268
1529-7268
DOI:10.1093/biolre/ioab062