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A web-based bioinformatics interface applied to the GENOSOJA Project: Databases and pipelines

The Genosoja consortium is an initiative to integrate different omics research approaches carried out in Brazil. Basically, the aim of the project is to improve the plant by identifying genes involved in responses against stresses that affect domestic production, like drought stress and Asian Rust f...

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Detalles Bibliográficos
Autores principales: do Nascimento, Leandro Costa, Costa, Gustavo Gilson Lacerda, Binneck, Eliseu, Pereira, Gonçalo Amarante Guimarães, Carazzolle, Marcelo Falsarella
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Sociedade Brasileira de Genética 2012
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3392873/
https://www.ncbi.nlm.nih.gov/pubmed/22802706
http://dx.doi.org/10.1590/S1415-47572012000200002
Descripción
Sumario:The Genosoja consortium is an initiative to integrate different omics research approaches carried out in Brazil. Basically, the aim of the project is to improve the plant by identifying genes involved in responses against stresses that affect domestic production, like drought stress and Asian Rust fungal disease. To do so, the project generated several types of sequence data using different methodologies, most of them sequenced by next generation sequencers. The initial stage of the project is highly dependent on bioinformatics analysis, providing suitable tools and integrated databases. In this work, we describe the main features of the Genosoja web database, including the pipelines to analyze some kinds of data (ESTs, SuperSAGE, microRNAs, subtractive cDNA libraries), as well as web interfaces to access information about soybean gene annotation and expression.