title: Inferring protein function from homology using the Princeton Protein Orthology Database (P-POD).
abstract: Inferring a protein's function by homology is a powerful tool for biologists. The Princeton Protein Orthology Database (P-POD) offers a simple way to visualize and analyze the relationships between homologous proteins in order to infer function. P-POD contains computationally generated analysis distinguishing orthologs from paralogs combined with curated published information on functional complementation and on human diseases. P-POD also features an applet, Notung, for users to explore and modify phylogenetic trees and generate their own ortholog/paralogs calls. This unit describes how to search P-POD for precomputed data, how to find and use the associated curated information from the literature, and how to use Notung to analyze and refine the results.
authors.affiliation: Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, USA.
authors.forename: Michael S
authors.initials: MS
authors.lastname: Livstone
authors.forename: Rose
authors.initials: R
authors.lastname: Oughtred
authors.forename: Sven
authors.initials: S
authors.lastname: Heinicke
authors.forename: Benjamin
authors.initials: B
authors.lastname: Vernot
authors.forename: Curtis
authors.initials: C
authors.lastname: Huttenhower
authors.forename: Dannie
authors.initials: D
authors.lastname: Durand
authors.forename: Kara
authors.initials: K
authors.lastname: Dolinski
mesh_terms: D030562:Databases, Protein; D019143:Evolution, Molecular; D023281:Genomics / Q000379:methods*; D010802:Phylogeny; D011506:Proteins / Q000737:chemistry* / Q000145:classification / Q000378:metabolism; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein; D017386:Sequence Homology, Amino Acid
chemical_list: D011506:Proteins