PROFESS: a PROtein function, evolution, structure and sequence database

Database (Oxford). 2010 Jul 6;2010:baq011. doi: 10.1093/database/baq011.

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/

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Data Mining
  • Databases, Protein*
  • Evolution, Molecular
  • Humans
  • Internet
  • Pancreatic Neoplasms / drug therapy
  • Pancreatic Neoplasms / genetics
  • Pancreatic Neoplasms / physiopathology
  • Protein Interaction Mapping
  • Proteins / chemistry
  • Proteins / genetics*
  • Proteins / physiology*
  • Sequence Alignment
  • Structural Homology, Protein

Substances

  • Proteins