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Nucleic Acids Res. 2013 Jan;41(Database issue):D676-83. doi: 10.1093/nar/gks1064. Epub 2012 Nov 20.

DictyBase 2013: integrating multiple Dictyostelid species.

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  • 1Biomedical Informatics Center and Center for Genetic Medicine, Northwestern Univesity, Feinberg School of Medicine, 750 North Lake Shore Drive, Chicago, IL 60611, USA.

Abstract

dictyBase (http://dictybase.org) is the model organism database for the social amoeba Dictyostelium discoideum. This contribution provides an update on dictyBase that has been previously presented. During the past 3 years, dictyBase has taken significant strides toward becoming a genome portal for the whole Amoebozoa clade. In its latest release, dictyBase has scaled up to host multiple Dictyostelids, including Dictyostelium purpureum [Sucgang, Kuo, Tian, Salerno, Parikh, Feasley, Dalin, Tu, Huang, Barry et al.(2011) (Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum. Genome Biol., 12, R20)], Dictyostelium fasciculatum and Polysphondylium pallidum [Heidel, Lawal, Felder, Schilde, Helps, Tunggal, Rivero, John, Schleicher, Eichinger et al. (2011) (Phylogeny-wide analysis of social amoeba genomes highlights ancient origins for complex intercellular communication. Genome Res., 21, 1882-1891)]. The new release includes a new Genome Browser with RNAseq expression, interspecies Basic Local Alignment Search Tool alignments and a unified Basic Local Alignment Search Tool search for cross-species comparisons.

PMID:
23172289
[PubMed - indexed for MEDLINE]
PMCID:
PMC3531180
Free PMC Article
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