GARSA: genomic analysis resources for sequence annotation | Zendy

Alberto M. R. Dávila | Zendy; Daniel M. Lorenzini | Zendy; Pablo N. Mendes | Zendy; Thiago S. Satake | Zendy; Gabriel Rodrigues dos Reis de Sousa | Zendy; Linair Maria Campos | Zendy; Camila J. Mazzoni | Zendy; Glauber Wagner | Zendy; Paulo F. Pires | Zendy; Edmundo C. Grisard | Zendy; Maria Cláudia Cavalcanti | Zendy; María Luiza Machado Campos | Zendy

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GARSA: genomic analysis resources for sequence annotation

Author(s) -

Alberto M. R. Dávila,

Daniel M. Lorenzini,

Pablo N. Mendes,

Thiago S. Satake,

Gabriel Rodrigues dos Reis de Sousa,

Linair Maria Campos,

Camila J. Mazzoni,

Glauber Wagner,

Paulo F. Pires,

Edmundo C. Grisard,

Maria Cláudia Cavalcanti,

María Luiza Machado Campos

Publication year - 2005

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti705

Subject(s) - context (archaeology) , annotation , genbank , biology , pipeline (software) , uniprot , computational biology , mit license , computer science , license , bioinformatics , genetics , gene , programming language , paleontology , operating system

Growth of genome data and analysis possibilities have brought new levels of difficulty for scientists to understand, integrate and deal with all this ever-increasing information. In this scenario, GARSA has been conceived aiming to facilitate the tasks of integrating, analyzing and presenting genomic information from several bioinformatics tools and genomic databases, in a flexible way. GARSA is a user-friendly web-based system designed to analyze genomic data in the context of a pipeline. EST and GGS data can be analyzed using the system since it accepts (1) chromatograms, (2) download of sequences from GenBank, (3) Fasta files stored locally or (4) a combination of all three. Quality evaluation of chromatograms, vector removing and clusterization are easily performed as part of the pipeline. A number of local and customizable Blast and CDD analyses can be performed as well as Interpro, complemented with phylogeny analyses. GARSA is being used for the analyses of Trypanosoma vivax (GSS and EST), Trypanosoma rangeli (GSS, EST and ORESTES), Bothrops jararaca (EST), Piaractus mesopotamicus (EST) and Lutzomyia longipalpis (EST).

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