miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data

MicroRNAs (miRs) have been broadly implicated in animal development and disease. We developed a novel computational strategy for the systematic, whole-genome identification of miRs from high throughput sequencing information. This method, miRTRAP, incorporates the mechanisms of miR biogenesis and in...

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Detalles Bibliográficos
Autores principales: Hendrix, David, Levine, Michael, Shi, Weiyang
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2010
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2884542/
https://www.ncbi.nlm.nih.gov/pubmed/20370911
http://dx.doi.org/10.1186/gb-2010-11-4-r39
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author Hendrix, David
Levine, Michael
Shi, Weiyang
author_facet Hendrix, David
Levine, Michael
Shi, Weiyang
author_sort Hendrix, David
collection PubMed
description MicroRNAs (miRs) have been broadly implicated in animal development and disease. We developed a novel computational strategy for the systematic, whole-genome identification of miRs from high throughput sequencing information. This method, miRTRAP, incorporates the mechanisms of miR biogenesis and includes additional criteria regarding the prevalence and quality of small RNAs arising from the antisense strand and neighboring loci. This program was applied to the simple chordate Ciona intestinalis and identified nearly 400 putative miR loci.
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spelling pubmed-28845422010-06-15 miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data Hendrix, David Levine, Michael Shi, Weiyang Genome Biol Method MicroRNAs (miRs) have been broadly implicated in animal development and disease. We developed a novel computational strategy for the systematic, whole-genome identification of miRs from high throughput sequencing information. This method, miRTRAP, incorporates the mechanisms of miR biogenesis and includes additional criteria regarding the prevalence and quality of small RNAs arising from the antisense strand and neighboring loci. This program was applied to the simple chordate Ciona intestinalis and identified nearly 400 putative miR loci. BioMed Central 2010 2010-04-06 /pmc/articles/PMC2884542/ /pubmed/20370911 http://dx.doi.org/10.1186/gb-2010-11-4-r39 Text en Copyright ©2010 Hendrix et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Hendrix, David
Levine, Michael
Shi, Weiyang
miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title_full miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title_fullStr miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title_full_unstemmed miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title_short miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data
title_sort mirtrap, a computational method for the systematic identification of mirnas from high throughput sequencing data
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2884542/
https://www.ncbi.nlm.nih.gov/pubmed/20370911
http://dx.doi.org/10.1186/gb-2010-11-4-r39
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AT shiweiyang mirtrapacomputationalmethodforthesystematicidentificationofmirnasfromhighthroughputsequencingdata

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