GO FEAT: a rapid web-based functional annotation tool for genomic and transcriptomic data

Fabricio Almeida Araujo,Artur Silva,Rommel Thiago Juca Ramos,Debmalya Barh,Luis Guimarães

doi:10.1038/s41598-018-20211-9

Fabricio Almeida Araujo, Artur Silva + Show 3 more

Open Access

https://doi.org/10.1038/s41598-018-20211-9

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Abstract

Downstream analysis of genomic and transcriptomic sequence data is often executed by functional annotation that can be performed by various bioinformatics tools and biological databases. However, a full fast integrated tool is not available for such analysis. Besides, the current available software is not able to produce analytic lists of annotations and graphs to help users in evaluating the output results. Therefore, we present the Gene Ontology Functional Enrichment Annotation Tool (GO FEAT), a free web platform for functional annotation and enrichment of genomic and transcriptomic data based on sequence homology search. The analysis can be customized and visualized as per users’ needs and specifications. GO FEAT is freely available at http://computationalbiology.ufpa.br/gofeat/ and its source code is hosted at https://github.com/fabriciopa/gofeat.

Highlights

Giving biological meaning to genomic and transcriptomic data is laborious and time consuming, especially considering the large amount of data generated by high-throughput technologies[1] and the number of tools, web-servers and databases developed for this purpose[2]
We developed Gene Ontology Functional Enrichment Annotation Tool (GO FEAT), a free, on-line, user friendly platform for functional annotation and enrichment of genomic and transcriptomic data based on sequence homology search, allowing users to export the results to different output formats, to generate reports, tables, Gene Ontology (GO) charts and graphs that help them with downstream analysis
GO FEAT was developed to be executed in any modern internet browser

Summary

Introduction

Giving biological meaning to genomic and transcriptomic data is laborious and time consuming, especially considering the large amount of data generated by high-throughput technologies[1] and the number of tools, web-servers and databases developed for this purpose[2]. Many tools are available for the annotation process: Blast2GO10, AmiGO11, GOrilla[12], REVIGO13, QuickGO14, NaviGO15 These tools have limitations: a) not all are completely and freely available; b) installation, configuration and command line are complex; c) lack of visual interface; d) limited capacity or sequence number limitation for analysis e) difficulty to share and export results. To address these issues, we developed GO FEAT, a free, on-line, user friendly platform for functional annotation and enrichment of genomic and transcriptomic data based on sequence homology search, allowing users to export the results to different output formats, to generate reports, tables, GO charts and graphs that help them with downstream analysis

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