PhyloPat: phylogenetic pattern analysis of eukaryotic genes

@article{Hulsen2006PhyloPatPP,
  title={PhyloPat: phylogenetic pattern analysis of eukaryotic genes},
  author={Tim Hulsen and Jacob de Vlieg and Peter M. A. Groenen},
  journal={BMC Bioinformatics},
  year={2006},
  volume={7},
  pages={398 - 398}
}
BackgroundPhylogenetic patterns show the presence or absence of certain genes or proteins in a set of species. They can also be used to determine sets of genes or proteins that occur only in certain evolutionary branches. Phylogenetic patterns analysis has routinely been applied to protein databases such as COG and OrthoMCL, but not upon gene databases. Here we present a tool named PhyloPat which allows the complete Ensembl gene database to be queried using phylogenetic patterns… CONTINUE READING

Citations

Publications citing this paper.
SHOWING 1-10 OF 12 CITATIONS

References

Publications referenced by this paper.
SHOWING 1-10 OF 26 REFERENCES

A phylogenomic gene c luster resource: the Phylogenetically Inferred Groups (P h IG s ) database

PS Dehal, JL Boore
  • BMC Bio­ informatics
  • 2006
VIEW 1 EXCERPT

Benchm arking ortholog identification methods using functional genomics data

T Hulsen, MA Huynen, J de Vlieg, PM Groenen
  • Genome Biol 2006,
  • 2006
VIEW 1 EXCERPT

L-D B : que­ rying a com prehensive multi-species collection o f ortholog groups

F Chen, AJ Mackey, CJJ Stoeckert, C Roos DS O rthoM
  • Nucleic Ac/ds Res
  • 2006
VIEW 1 EXCERPT

O rthoM C LD B : que ­ rying a com prehensive multi - species collection o f ortholog groups

F Chen, AJ Mackey, Stoeckert CJJ, DS Roos
  • Nucleic Ac / ds Res
  • 2006

No more than 14: the end of the amphioxus Hox cluster

  • International journal of biological sciences
  • 2005
VIEW 2 EXCERPTS

a m ultiple sequence alignm ent method w ith reduced tim e and space com plexity

L EEdgarRCMUSC
  • BMC Bioinformatics
  • 2004
VIEW 1 EXCERPT