DarkHorse: A Database for Identifying Unusual Genes in Microbial Genomes
Author Information
Author(s): Sheila Podell, Terry Gaasterland, Eric E. Allen
Primary Institution: Scripps Institution of Oceanography, University of California at San Diego
Hypothesis
The DarkHorse algorithm can effectively identify phylogenetically atypical genes in microbial genomes.
Conclusion
The DarkHorse HGT Candidate database is a powerful tool for identifying atypical proteins and exploring horizontal gene transfer patterns.
Supporting Evidence
- The DarkHorse algorithm processes large numbers of genomes efficiently.
- It provides a web-searchable database for exploring horizontal gene transfer.
- The algorithm uses lineage probability index scores to identify atypical genes.
Takeaway
The DarkHorse database helps scientists find unusual genes in bacteria and archaea, which can show how genes move between different organisms.
Methodology
The DarkHorse algorithm was applied to 955 microbial genomes to identify atypical genes using lineage probability index scores.
Limitations
The algorithm cannot provide definitive proof of horizontal gene transfer by itself.
Digital Object Identifier (DOI)
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