title: PROFESS: a PROtein function, evolution, structure and sequence database.
abstract: The proliferation of biological databases and the easy access enabled by the Internet is having a beneficial impact on biological sciences and transforming the way research is conducted. There are approximately 1100 molecular biology databases dispersed throughout the Internet. To assist in the functional, structural and evolutionary analysis of the abundant number of novel proteins continually identified from whole-genome sequencing, we introduce the PROFESS (PROtein Function, Evolution, Structure and Sequence) database. Our database is designed to be versatile and expandable and will not confine analysis to a pre-existing set of data relationships. A fundamental component of this approach is the development of an intuitive query system that incorporates a variety of similarity functions capable of generating data relationships not conceived during the creation of the database. The utility of PROFESS is demonstrated by the analysis of the structural drift of homologous proteins and the identification of potential pancreatic cancer therapeutic targets based on the observation of protein-protein interaction networks. Database URL: http://cse.unl.edu/~profess/
authors.affiliation: Department of Computer Science and Engineering, University of Nebraska-Lincoln, Lincoln, NE 68588-0115, USA.
authors.forename: Thomas
authors.initials: T
authors.lastname: Triplet
authors.forename: Matthew D
authors.initials: MD
authors.lastname: Shortridge
authors.forename: Mark A
authors.initials: MA
authors.lastname: Griep
authors.forename: Jaime L
authors.initials: JL
authors.lastname: Stark
authors.forename: Robert
authors.initials: R
authors.lastname: Powers
authors.forename: Peter
authors.initials: P
authors.lastname: Revesz
mesh_terms: D000595:Amino Acid Sequence; D057225:Data Mining; D030562:Databases, Protein; D019143:Evolution, Molecular; D006801:Humans; D020407:Internet; D010190:Pancreatic Neoplasms / Q000188:drug therapy / Q000235:genetics / Q000503:physiopathology; D025941:Protein Interaction Mapping; D011506:Proteins / Q000737:chemistry / Q000235:genetics* / Q000502:physiology*; D016415:Sequence Alignment; D040681:Structural Homology, Protein
chemical_list: D011506:Proteins