Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences
Abstract
A computational method system, and computer program are provided for inferring functional links from genome sequences. One method is based on the observation that some pairs of proteins A' and B' have homologs in another organism fused into a single protein chain AB. A trans-genome comparison of sequences can reveal these AB sequences, which are Rosetta Stone sequences because they decipher an interaction between A' and B. Another method compares the genomic sequence of two or more organisms to create a phylogenetic profile for each protein indicating its presence or absence across all the genomes. The profile provides information regarding functional links between different families of proteins. In yet another method a combination of the above two methods is used to predict functional links.
- Inventors:
-
- Los Angeles, CA
- Sherman Oaks, CA
- Santa Monica, CA
- Agoura Hills, CA
- Issue Date:
- Research Org.:
- Univ. of California (United States)
- OSTI Identifier:
- 874814
- Patent Number(s):
- 6466874
- Application Number:
- 09/493,497
- Assignee:
- The Regents of the University of California (Oakland, CA)
- Patent Classifications (CPCs):
-
G - PHYSICS G16 - INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS G16B - BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- DOE Contract Number:
- FC03-87ER60615
- Resource Type:
- Patent
- Country of Publication:
- United States
- Language:
- English
- Subject:
- rosetta; stone; method; detecting; protein; function; protein-protein; interactions; genome; sequences; computational; computer; provided; inferring; functional; links; based; observation; pairs; proteins; homologs; organism; fused; single; chain; trans-genome; comparison; reveal; decipher; interaction; compares; genomic; sequence; organisms; create; phylogenetic; profile; indicating; presence; absence; genomes; provides; information; regarding; families; combination; methods; predict; provides information; /702/435/530/
Citation Formats
Eisenberg, David, Marcotte, Edward M, Pellegrini, Matteo, Thompson, Michael J, and Yeates, Todd O. Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences. United States: N. p., 2002.
Web.
Eisenberg, David, Marcotte, Edward M, Pellegrini, Matteo, Thompson, Michael J, & Yeates, Todd O. Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences. United States.
Eisenberg, David, Marcotte, Edward M, Pellegrini, Matteo, Thompson, Michael J, and Yeates, Todd O. Tue .
"Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences". United States. https://www.osti.gov/servlets/purl/874814.
@article{osti_874814,
title = {Rosetta stone method for detecting protein function and protein-protein interactions from genome sequences},
author = {Eisenberg, David and Marcotte, Edward M and Pellegrini, Matteo and Thompson, Michael J and Yeates, Todd O},
abstractNote = {A computational method system, and computer program are provided for inferring functional links from genome sequences. One method is based on the observation that some pairs of proteins A' and B' have homologs in another organism fused into a single protein chain AB. A trans-genome comparison of sequences can reveal these AB sequences, which are Rosetta Stone sequences because they decipher an interaction between A' and B. Another method compares the genomic sequence of two or more organisms to create a phylogenetic profile for each protein indicating its presence or absence across all the genomes. The profile provides information regarding functional links between different families of proteins. In yet another method a combination of the above two methods is used to predict functional links.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2002},
month = {1}
}
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