resumen
Abstract
Background: In the last years, applications based on massively parallelized RNA sequencing (RNA-seq) have become valuable approaches for studying non-model species, e.g., without a fully sequenced genome. RNA-seq is a useful tool for detecting novel transcripts and genetic variations and for evaluating differential gene expression by digital measurements. The large and complex datasets resulting from functional genomic experiments represent a challenge in
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dc.contributor.author | Gonzalez, Sergio Alberto | |
dc.contributor.author | Clavijo, Bernardo | |
dc.contributor.author | Rivarola, Maximo Lisandro | |
dc.contributor.author | Moreno, Patricio | |
dc.contributor.author | Fernández, Paula | |
dc.contributor.author | Dopazo, Joaquín | |
dc.contributor.author | Paniego, Norma Beatriz | |
dc.date.accessioned | 2017-06-28T15:35:40Z | |
dc.date.available | 2017-06-28T15:35:40Z | |
dc.date.issued | 2017-02-22 | |
dc.identifier.uri | http://hdl.handle.net/20.500.12123/502 | |
dc.identifier.uri | https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-017-1494-2 | |
dc.description.abstract | Background: In the last years, applications based on massively parallelized RNA sequencing (RNA-seq) have become valuable approaches for studying non-model species, e.g., without a fully sequenced genome. RNA-seq is a useful tool for detecting novel transcripts and genetic variations and for evaluating differential gene expression by digital measurements. The large and complex datasets resulting from functional genomic experiments represent a challenge in data processing, management, and analysis. This problem is especially significant for small research groups working with non-model species. Results: We developed a web-based application, called ATGC transcriptomics, with a flexible and adaptable interface that allows users to work with new generation sequencing (NGS) transcriptomic analysis results using an ontology-driven database. This new application simplifies data exploration, visualization, and integration for a better comprehension of the results. Conclusions: ATGC transcriptomics provides access to non-expert computer users and small research groups to a scalable storage option and simple data integration, including database administration and management. The software is freely available under the terms of GNU public license at http://atgcinta.sourceforge.net. | |
dc.format | application/pdf | |
dc.language.iso | eng | |
dc.rights | info:eu-repo/semantics/openAccess | |
dc.rights.uri | http://creativecommons.org/licenses/by-nc-sa/4.0/ | |
dc.source | BMC bioinformatics 18 (121) : 1-9. (2017) | |
dc.subject | Programas de ordenador | |
dc.subject | World Wide Web | |
dc.subject | Secuencia de ARN | |
dc.title | ATGC transcriptomics : a web-based application to integrate, explore and analyze de novo transcriptomic data | |
dc.type | info:ar-repo/semantics/artículo | |
dc.type | info:eu-repo/semantics/article | eng |
dc.type | info:eu-repo/semantics/publishedVersion | eng |
dc.rights.license | Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) | |
dc.description.origen | Inst. de Biotecnología | |
dc.gic | 152935 | |
dc.description.fil | Fil: Gonzalez, Sergio Alberto. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina | |
dc.description.fil | Fil: Clavijo, Bernardo. Norwich Research Park. Earlham Institute; Reino Unido | |
dc.description.fil | Fil: Rivarola, Maximo Lisandro. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | |
dc.description.fil | Fil: Moreno, Patricio. Universidad de Buenos Aires. Facultad de Ingeniería. Instituto de Ingeniería Biomédica; Argentina | |
dc.description.fil | Fil: Fernández, Paula. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Universidad Nacional de San Martín. Escuela de Ciencia y Tecnología; Argentina | |
dc.description.fil | Fil: Dopazo, Joaquín Centro de Investigación Príncipe Felipe. Computational Genomics Department; España | |
dc.description.fil | Fil: Paniego, Norma Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina | |
dc.subtype | cientifico |
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