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PubMed · 10779495

Drosophila genomic sequence annotation using the BLOCKS+ database.

J G Henikoff·S Henikoff
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Abstract

A simple and general homology-based method for gene finding was applied to the 2.9-Mb Drosophila melanogaster Adh region, the target sequence of the Genome Annotation Assessment Project (GASP). Each strand of the entire sequence was used as query of the BLOCKS+ database of conserved regions of proteins. This led to functional assignments for more than one-third of the genes and two-thirds of the transposons. Considering the enormous size of the query, the fact that only two false-positive matches were reported emphasizes the high selectivity of protein family-based methods for gene finding. We used the search results to improve BLOCKS+ by identifying compositionally biased blocks. Our results confirm that protein family databases can be used effectively in automated sequence annotation efforts.

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Alcohol DehydrogenaseAnimalsComputational BiologyDatabases, FactualDrosophila melanogasterGenes, InsectGenomeSequence Homology, Nucleic AcidSoftwareJournal ArticleResearch Support, U.S. Gov't, P.H.S.

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J G Henikoff, S Henikoff. 2000. Drosophila genomic sequence annotation using the BLOCKS+ database.. https://doi.org/10.1101/gr.10.4.543

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