Computational analysis, biochemical purification, and detection of tRNA-derived small RNA fragments

Keam, SP; Sobala, A; Humphreys, DT; Suter, CM; Hutvagner, G

Computational analysis, biochemical purification, and detection of tRNA-derived small RNA fragments

Keam, SP

Sobala, A Humphreys, DT Suter, CM Hutvagner, G

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Publication Type:: Journal Article
Citation:: Methods in Molecular Biology, 2014, 1173 pp. 157 - 167
Issue Date:: 2014-01-01

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Field	Value	Language
dc.contributor.author	Keam, SP https://orcid.org/0000-0001-9053-9138	en_US
dc.contributor.author	Sobala, A	en_US
dc.contributor.author	Humphreys, DT	en_US
dc.contributor.author	Suter, CM	en_US
dc.contributor.author	Hutvagner, G https://orcid.org/0000-0002-7231-9446	en_US
dc.date.issued	2014-01-01	en_US
dc.identifier.citation	Methods in Molecular Biology, 2014, 1173 pp. 157 - 167	en_US
dc.identifier.issn	1064-3745	en_US
dc.identifier.uri	http://hdl.handle.net/10453/33143
dc.description.abstract	© Springer Science+Business Media New York 2014. The rapidly growing list of small RNA species generated by next-generation sequencing technologies has accelerated the development of new bioinformatics tools for their detection. Small RNAs generated from tRNAs, transfer RNA-derived fragments (tRFs), represent a novel challenge in accurately identifying and distinguishing them from random degradation products of tRNAs. Here, we describe a bioinformatics approach to detect tRFs in next-generation sequencing libraries. We also present a biochemical purification protocol for enriching 5′ tRFs and separating them from miRNAs. And finally, we suggest reliable methods for detecting and quantifying tRFs.	en_US
dc.relation.ispartof	Methods in Molecular Biology	en_US
dc.relation.isbasedon	10.1007/978-1-4939-0931-5_14	en_US
dc.subject.classification	Developmental Biology	en_US
dc.subject.mesh	Humans	en_US
dc.subject.mesh	RNA, Transfer	en_US
dc.subject.mesh	Chromatography, Ion Exchange	en_US
dc.subject.mesh	Blotting, Northern	en_US
dc.subject.mesh	Polymerase Chain Reaction	en_US
dc.subject.mesh	Genomics	en_US
dc.subject.mesh	Base Sequence	en_US
dc.subject.mesh	Internet	en_US
dc.subject.mesh	Molecular Sequence Data	en_US
dc.subject.mesh	Databases, Nucleic Acid	en_US
dc.subject.mesh	RNA, Small Untranslated	en_US
dc.subject.mesh	High-Throughput Nucleotide Sequencing	en_US
dc.title	Computational analysis, biochemical purification, and detection of tRNA-derived small RNA fragments	en_US
dc.type	Journal Article
utslib.citation.volume	1173	en_US
utslib.for	0601 Biochemistry and Cell Biology	en_US
utslib.for	0399 Other Chemical Sciences	en_US
pubs.embargo.period	Not known	en_US
pubs.organisational-group	/University of Technology Sydney
pubs.organisational-group	/University of Technology Sydney/Faculty of Engineering and Information Technology
pubs.organisational-group	/University of Technology Sydney/Faculty of Engineering and Information Technology/School of Biomedical Engineering
pubs.organisational-group	/University of Technology Sydney/Strength - CHT - Health Technologies
utslib.copyright.status	closed_access
pubs.publication-status	Published	en_US
pubs.volume	1173	en_US

Abstract:

© Springer Science+Business Media New York 2014. The rapidly growing list of small RNA species generated by next-generation sequencing technologies has accelerated the development of new bioinformatics tools for their detection. Small RNAs generated from tRNAs, transfer RNA-derived fragments (tRFs), represent a novel challenge in accurately identifying and distinguishing them from random degradation products of tRNAs. Here, we describe a bioinformatics approach to detect tRFs in next-generation sequencing libraries. We also present a biochemical purification protocol for enriching 5′ tRFs and separating them from miRNAs. And finally, we suggest reliable methods for detecting and quantifying tRFs.

Please use this identifier to cite or link to this item:

http://hdl.handle.net/10453/33143