Abstract
Background. Computational gene prediction continues to be an important problem, especially for genomes with little experimental data. Results. I introduce the SNAP gene finder which has been designed to be easily adaptable to a variety of genomes. In novel genomes without an appropriate gene finder, I demonstrate that employing a foreign gene finder can produce highly inaccurate results, and that the most compatible parameters may not come from the nearest phylogenetic neighbor. I find that foreign gene finders are more usefully employed to bootstrap parameter estimation and that the resulting parameters can be highly accurate. Conclusion.Since gene prediction is sensitive to species-specific parameters, every genome needs dedicated gene finder.
Original language | English (US) |
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Article number | 59 |
Journal | BMC Bioinformatics |
Volume | 5 |
DOIs | |
State | Published - May 14 2004 |
Externally published | Yes |
ASJC Scopus subject areas
- Medicine(all)
- Structural Biology
- Applied Mathematics