TACO produces robust multi-sample transcriptome assemblies from RNA-seq

Accurate transcript structure and abundance inference from RNA-Seq data is foundational for molecular discovery. Here we present TACO, a computational method to reconstruct a consensus transcriptome from multiple RNA-Seq datasets. TACO employs novel change-point detection to demarcate transcript sta...

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Detalles Bibliográficos
Autores principales: Niknafs, Yashar S., Pandian, Balaji, Iyer, Hariharan K., Chinnaiyan, Arul M., Iyer, Matthew K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2016
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5199618/
https://www.ncbi.nlm.nih.gov/pubmed/27869815
http://dx.doi.org/10.1038/nmeth.4078
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author Niknafs, Yashar S.
Pandian, Balaji
Iyer, Hariharan K.
Chinnaiyan, Arul M.
Iyer, Matthew K.
author_facet Niknafs, Yashar S.
Pandian, Balaji
Iyer, Hariharan K.
Chinnaiyan, Arul M.
Iyer, Matthew K.
author_sort Niknafs, Yashar S.
collection PubMed
description Accurate transcript structure and abundance inference from RNA-Seq data is foundational for molecular discovery. Here we present TACO, a computational method to reconstruct a consensus transcriptome from multiple RNA-Seq datasets. TACO employs novel change-point detection to demarcate transcript start and end sites, leading to dramatically improved reconstruction accuracy compared to other tools in its class. The tool is available at http://tacorna.github.io and can be readily incorporated into RNA-Seq analysis workflows.
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spelling pubmed-51996182017-05-21 TACO produces robust multi-sample transcriptome assemblies from RNA-seq Niknafs, Yashar S. Pandian, Balaji Iyer, Hariharan K. Chinnaiyan, Arul M. Iyer, Matthew K. Nat Methods Article Accurate transcript structure and abundance inference from RNA-Seq data is foundational for molecular discovery. Here we present TACO, a computational method to reconstruct a consensus transcriptome from multiple RNA-Seq datasets. TACO employs novel change-point detection to demarcate transcript start and end sites, leading to dramatically improved reconstruction accuracy compared to other tools in its class. The tool is available at http://tacorna.github.io and can be readily incorporated into RNA-Seq analysis workflows. 2016-11-21 2017-01 /pmc/articles/PMC5199618/ /pubmed/27869815 http://dx.doi.org/10.1038/nmeth.4078 Text en Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Niknafs, Yashar S.
Pandian, Balaji
Iyer, Hariharan K.
Chinnaiyan, Arul M.
Iyer, Matthew K.
TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title_full TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title_fullStr TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title_full_unstemmed TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title_short TACO produces robust multi-sample transcriptome assemblies from RNA-seq
title_sort taco produces robust multi-sample transcriptome assemblies from rna-seq
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5199618/
https://www.ncbi.nlm.nih.gov/pubmed/27869815
http://dx.doi.org/10.1038/nmeth.4078
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