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Title: Physical-chemical property based sequence motifs and methods regarding same

Abstract

A data analysis system, program, and/or method, e.g., a data mining/data exploration method, using physical-chemical property motifs. For example, a sequence database may be searched for identifying segments thereof having physical-chemical properties similar to the physical-chemical property motifs.

Inventors:
 [1];  [2];  [1]
  1. Friendswood, TX
  2. Sarasota, FL
Issue Date:
Research Org.:
University of Texas
Sponsoring Org.:
USDOE
OSTI Identifier:
984949
Patent Number(s):
7424369
Application Number:
10/817,530
Assignee:
Board of Regents, The University of Texas System (Austin, TX)
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:  
FG03-00ER63041; FG02-04ER63826
Resource Type:
Patent
Country of Publication:
United States
Language:
English
Subject:
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY

Citation Formats

Braun, Werner, Mathura, Venkatarajan S, and Schein, Catherine H. Physical-chemical property based sequence motifs and methods regarding same. United States: N. p., 2008. Web.
Braun, Werner, Mathura, Venkatarajan S, & Schein, Catherine H. Physical-chemical property based sequence motifs and methods regarding same. United States.
Braun, Werner, Mathura, Venkatarajan S, and Schein, Catherine H. Tue . "Physical-chemical property based sequence motifs and methods regarding same". United States. https://www.osti.gov/servlets/purl/984949.
@article{osti_984949,
title = {Physical-chemical property based sequence motifs and methods regarding same},
author = {Braun, Werner and Mathura, Venkatarajan S and Schein, Catherine H},
abstractNote = {A data analysis system, program, and/or method, e.g., a data mining/data exploration method, using physical-chemical property motifs. For example, a sequence database may be searched for identifying segments thereof having physical-chemical properties similar to the physical-chemical property motifs.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {2008},
month = {9}
}

Works referenced in this record:

Comparison of functional annotation schemes for genomes
journal, April 2000


Profile hidden Markov models
journal, October 1998


SCOP database in 2002: refinements accommodate structural genomics
journal, January 2002


On the sequencing of the human genome
journal, March 2002


Mapping the Protein Universe
journal, August 1996


Increased coverage of protein families with the Blocks Database servers
journal, January 2000


Blocks+: a non-redundant database of protein alignment blocks derived from multiple compilations
journal, June 1999


The ASTRAL compendium for protein structure and sequence analysis
journal, January 2000


Protein Family Classification Based on Searching a Database of Blocks
journal, January 1994


Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
journal, September 1997


One Fold with Many Functions: The Evolutionary Relationships between TIM Barrel Families Based on their Sequences, Structures and Functions
journal, August 2002


Dictionary-driven protein annotation
journal, September 2002


ASTRAL compendium enhancements
journal, January 2002


The relation between the divergence of sequence and structure in proteins.
journal, April 1986


A combined algorithm for genome-wide prediction of protein function
journal, November 1999


Within the twilight zone: a sensitive profile-profile comparison tool based on information theory
journal, February 2002


Remote homology detection: a motif based approach
journal, July 2003


Amino acid substitution during functionally constrained divergent evolution of protein sequences
journal, January 1994


A method to identify protein sequences that fold into a known three-dimensional structure
journal, July 1991


The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
journal, January 2000


Comparison of sequence profiles. Strategies for structural predictions using sequence information
journal, January 2000


The use of gene clusters to infer functional coupling
journal, March 1999


On Information and Sufficiency
journal, March 1951


Computational genetics: finding protein function by nonhomology methods
journal, June 2000


A sequence-profile-based HMM for predicting and discriminating   barrel membrane proteins
journal, July 2002


Molego-based definition of the architecture and specificity of metal-binding sites
journal, October 2004


Enhanced genome annotation using structural profiles in the program 3D-PSSM 1 1Edited by J. Thornton
journal, June 2000


Public web-based services from the European Bioinformatics Institute
journal, July 2004


The PROSITE database, its status in 2002
journal, January 2002


MASIA: recognition of common patterns and properties in multiple aligned protein sequences
journal, October 2000


New quantitative descriptors of amino acids based on multidimensional scaling of a large number of physical?chemical properties
journal, December 2001


Structural proteomics: developments in structure-to-function predictions
journal, February 2002