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

Database : the Journal of Biological Databases and Curation
Thomas TripletPeter Revesz

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/

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Citations

Apr 10, 2014·PloS One·Kaushik Bhattacharjee, Santa Ram Joshi
Apr 3, 2014·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Zhiyong WangXinghua Shi
Apr 8, 2014·American Journal of Respiratory and Critical Care Medicine·Vinicio A de Jesus PerezRoham T Zamanian
May 16, 2013·Briefings in Bioinformatics·Thomas Triplet, Gregory Butler
Feb 15, 2011·Computational Biology and Chemistry·Matthew D ShortridgeRobert Powers
Apr 9, 2019·Physics in Medicine and Biology·Josilene C SantosPaulo R Costa

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Methods Mentioned

BETA
NMR

Software Mentioned

Phylip
DrawTree
FASTA
BLAST
MAMMOTH
DaliLite
Cytoscape
PROFESSor
UniProt Mapping service
mult

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