The prediction of the degree of exposure to solvent of amino acid residues via genetic programming

Technical Report · Sat Dec 31 00:00:00 EST 1994

OSTI ID:377139

Handley, S ^[1]

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1. Stanford Univ., CA (United States)

In this paper I evolve programs that predict the degree of exposure to solvent (the buriedness) of amino acid residues given only the primary structure. I use genetic programming to evolve programs that take as input the primary structure and that output the buriedness of each residue. I trained these programs on a set of 82 proteins from the Brookhaven Protein Data Bank (PDB) and cross-validated them on a separate testing set of 40 proteins, also from the PDB. The best program evolved had a correlation of 0.434 between the predicted and observed buriednesses on the testing set.

• Research Organization: Stanford Univ., CA (United States)
• OSTI ID: 377139
• Report Number(s): CONF-9408117-; TRN: 96:005197-0019
• Resource Relation: Conference: 2. international conference on intelligent systems for molecular biology, Stanford, CA (United States), 15-17 Aug 1994; Other Information: PBD: [1994]; Related Information: Is Part Of Proceedings: Second international conference on intelligent systems for molecular biology; Altman, R.; Brutlag, D.; Karp, P.; Lathrop, R.; Searls, D. [eds.]; PB: 389 p.
• Country of Publication: United States
• Language: English

Related Subjects

55 BIOLOGY AND MEDICINE
BASIC STUDIES
99 MATHEMATICS
COMPUTERS
INFORMATION SCIENCE
MANAGEMENT
LAW
MISCELLANEOUS
PROTEIN STRUCTURE
COMPUTER CALCULATIONS
AMINO ACID SEQUENCE
MOLECULAR BIOLOGY
PROGRAMMING
RESIDUES
DATA ANALYSIS