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PhyloBuilder | Gather homologs -> Align sequences -> Construct trees -> Find subfamilies -> Structure prediction


PhyloFacts::PhyloBuilder PhyloBuilder Graphic

PhyloBuilder is designed to assist biologists in phylogenomic analysis of a protein, starting with the identification of family members (homologs), and proceeding to multiple sequence alignment and phylogenetic tree construction. Additional analyses include... More information.

If you find PhyloBuilder userful, please cite Jake Gunn Glanville, Dan Kirshner, Nandini Krishnamurthy and Kimmen Sjölander, "Berkeley Phylogenomics Group web servers: resources for structural phylogenomic analysis," Nucleic Acids Research 2007; doi:10.1093/nar/gkm325 in references to this resource.   Text   PDF


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Homolog selection
Global-global: Find globally alignable homologs (roughly the same length, and sharing the same series of domains). This excludes sequences sharing only a region in common, and is recommended for phylogenomic inference of function.
Global-local: Find homologs that match the seed along its entire length, but may contain additional domains. This is recommended when the query represents a domain, motif, or evolutionarily-conserved region that may be found in highly divergent proteins.


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