BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics.

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Serval ID
serval:BIB_2A4C7F8DA305
Type
Article: article from journal or magazin.
Publication sub-type
Minutes: analyse of a published work.
Collection
Publications
Institution
Title
BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics.
Journal
Molecular biology and evolution
Author(s)
Waterhouse R.M., Seppey M., Simão F.A., Manni M., Ioannidis P., Klioutchnikov G., Kriventseva E.V., Zdobnov E.M.
ISSN
1537-1719 (Electronic)
ISSN-L
0737-4038
Publication state
Published
Issued date
01/03/2018
Peer-reviewed
Oui
Volume
35
Number
3
Pages
543-548
Language
english
Notes
Publication types: Journal Article
Publication Status: ppublish
Abstract
Genomics promises comprehensive surveying of genomes and metagenomes, but rapidly changing technologies and expanding data volumes make evaluation of completeness a challenging task. Technical sequencing quality metrics can be complemented by quantifying completeness of genomic data sets in terms of the expected gene content of Benchmarking Universal Single-Copy Orthologs (BUSCO, http://busco.ezlab.org). The latest software release implements a complete refactoring of the code to make it more flexible and extendable to facilitate high-throughput assessments. The original six lineage assessment data sets have been updated with improved species sampling, 34 new subsets have been built for vertebrates, arthropods, fungi, and prokaryotes that greatly enhance resolution, and data sets are now also available for nematodes, protists, and plants. Here, we present BUSCO v3 with example analyses that highlight the wide-ranging utility of BUSCO assessments, which extend beyond quality control of genomics data sets to applications in comparative genomics analyses, gene predictor training, metagenomics, and phylogenomics.
Keywords
transcriptomics, metagenomics, bioinformatics, evolution, genomics
Pubmed
Web of science
Open Access
Yes
Funding(s)
Swiss National Science Foundation / Careers / PP00P3_170664
Create date
16/12/2017 19:38
Last modification date
04/01/2020 7:17
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