Protocol

Bioinformatics for DNA Sequence Analysis

Volume 537 of the series Methods in Molecular Biology pp 243-261

Date:

Computational Gene Annotation in New Genome Assemblies Using GeneID

  • Enrique BlancoAffiliated withDepartament de Genètica, Facultat de Biologia, Universitat de Barcelona
  • , Josep F. AbrilAffiliated withDepartament de Genètica, Facultat de Biologia, Universitat de Barcelona

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Abstract

The sequence of many eukaryotic genomes is nowadays available from a personal computer to any researcher in the world-wide scientific community. However, the sequences are worthless without the adequate annotation of the biological meaningful elements. The annotation of the genes, in particular, is a challenging task that can not be tackled without the aid of specific bioinformatics tools. We present in this chapter a simple protocol mainly based on the combination of the program GeneID and other computational tools to annotate the location of a gene, which was previously annotated in D. melanogaster, in the recently assembled genome of D. yakuba.

Key words

Gene finding gene protein genome exon intron sequence alignment annotation pipeline