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DC Field | Value | Language |
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dc.contributor.author | Vivek, A.T. | - |
dc.contributor.author | Kumar, Shailesh | - |
dc.date.accessioned | 2020-12-22T05:34:11Z | - |
dc.date.available | 2020-12-22T05:34:11Z | - |
dc.date.issued | 2021 | - |
dc.identifier.citation | Briefings in Bioinformatics, 22(4): bbaa322 | en_US |
dc.identifier.issn | 1477-4054 | - |
dc.identifier.other | https://doi.org/10.1093/bib/bbaa322 | - |
dc.identifier.uri | https://academic.oup.com/bib/advance-article/doi/10.1093/bib/bbaa322/6041165 | - |
dc.identifier.uri | http://223.31.159.10:8080/jspui/handle/123456789/1135 | - |
dc.description | Accepted date: 20 October 2020 | en_US |
dc.description.abstract | Plant transcriptome encompasses numerous endogenous, regulatory non-coding RNAs (ncRNAs) that play a major biological role in regulating key physiological mechanisms. While studies have shown that ncRNAs are extremely diverse and ubiquitous, the functions of the vast majority of ncRNAs are still unknown. With ever-increasing ncRNAs under study, it is essential to identify, categorize and annotate these ncRNAs on a genome-wide scale. The use of high-throughput RNA sequencing (RNA-seq) technologies provides a broader picture of the non-coding component of transcriptome, enabling the comprehensive identification and annotation of all major ncRNAs across samples. However, the detection of known and emerging class of ncRNAs from RNA-seq data demands complex computational methods owing to their unique as well as similar characteristics. Here, we discuss major plant endogenous, regulatory ncRNAs in an RNA sample followed by computational strategies applied to discover each class of ncRNAs using RNA-seq. We also provide a collection of relevant software packages and databases to present a comprehensive bioinformatics toolbox for plant ncRNA researchers. We assume that the discussions in this review will provide a rationale for the discovery of all major categories of plant ncRNAs. | en_US |
dc.description.sponsorship | A.T.V. acknowledges the Department of Biotechnology (DBT), Government of India, for providing research fellowship. S.K. acknowledges the core research grant of NIPGR provided by the Department of Biotechnology (DBT), Government of India. Authors gratefully acknowledge all the relevant methods and related work on tools and databases, if not included by any chance in this review. Also, authors are thankful to DBT e-Library Consortium (DeLCON) and Distributed Informatics Sub-Centre (Sub-DIC) facility at the National Institute of Plant Genome Research (NIPGR) for providing access to e-resources. | en_US |
dc.language.iso | en_US | en_US |
dc.publisher | Oxford University Press | en_US |
dc.subject | ncRNAs | en_US |
dc.subject | RNA-seq | en_US |
dc.subject | sRNA-seq | en_US |
dc.subject | miRNA | en_US |
dc.subject | siRNA | en_US |
dc.subject | tsRNA | en_US |
dc.subject | lncRNA | en_US |
dc.subject | circRNA | en_US |
dc.title | Computational methods for annotation of plant regulatory non-coding RNAs using RNA-seq | en_US |
dc.type | Article | en_US |
Appears in Collections: | Institutional Publications |
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File | Description | Size | Format | |
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Kumar Shai_2020_4.pdf Restricted Access | 1.42 MB | Adobe PDF | View/Open Request a copy |
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