Roundup 2.0: Enabling Comparative Genomics for over 1800 Genomes

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Roundup 2.0: Enabling Comparative Genomics for over 1800 Genomes

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Title: Roundup 2.0: Enabling Comparative Genomics for over 1800 Genomes
Author: Cui, Jike; St. Gabriel, Kristian Che; Jung, Jae-Yoon; Wall, Dennis Paul Paul; DeLuca, Todd F.

Note: Order does not necessarily reflect citation order of authors.

Citation: DeLuca, Todd F., Jike Cui, Jae-Yoon Jung, Kristian Che St. Gabriel, and Dennis Paul Paul Wall. 2012. Roundup 2.0: Enabling comparative genomics for over 1800 genomes. Bioinformatics 28(5): 715-716.
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Abstract: Summary: Roundup is an online database of gene orthologs for over 1800 genomes, including 226 Eukaryota, 1447 Bacteria, 113 Archaea, and 21 Viruses. Orthologs are inferred using the Reciprocal Smallest Distance algorithm. Users may query Roundup for single-linkage clusters of orthologous genes based on any group of genomes. Annotated query results may be viewed in a variety of ways including as clusters of orthologs and as phylogenetic profiles. Genomic results may be downloaded in formats suitable for functional as well as phylogenetic analysis, including the recent OrthoXML standard. In addition, gene IDs can be retrieved using FASTA sequence search. All orthology results and source code are freely available.
Published Version: doi:10.1093/bioinformatics/bts006
Other Sources: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3289913
Terms of Use: This article is made available under the terms and conditions applicable to Other Posted Material, as set forth at http://nrs.harvard.edu/urn-3:HUL.InstRepos:dash.current.terms-of-use#LAA
Citable link to this page: http://nrs.harvard.edu/urn-3:HUL.InstRepos:8519645

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