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» Identifying Protein Flexibility by NMA
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BMCBI
2008
87views more  BMCBI 2008»
13 years 7 months ago
Protein structure search and local structure characterization
Background: Structural similarities among proteins can provide valuable insight into their functional mechanisms and relationships. As the number of available three-dimensional (3...
Shih-Yen Ku, Yuh-Jyh Hu
RECOMB
2009
Springer
14 years 7 months ago
An Online Approach for Mining Collective Behaviors from Molecular Dynamics Simulations
Collective behavior involving distally separate regions in a protein is known to widely affect its function. In this paper, we present an online approach to study and characterize ...
Arvind Ramanathan, Pratul K. Agarwal, Maria Kurnik...
BMCBI
2007
139views more  BMCBI 2007»
13 years 7 months ago
XSTREAM: A practical algorithm for identification and architecture modeling of tandem repeats in protein sequences
Background: Biological sequence repeats arranged in tandem patterns are widespread in DNA and proteins. While many software tools have been designed to detect DNA tandem repeats (...
Aaron M. Newman, James B. Cooper
JIB
2006
106views more  JIB 2006»
13 years 7 months ago
A structural keystone for drug design
3D-structures of proteins and potential ligands are the cornerstones of rational drug design. The first brick to build upon is selecting a protein target and finding out whether b...
Kristian Rother, Mathias Dunkel, Elke Michalsky, S...
BMCBI
2006
153views more  BMCBI 2006»
13 years 7 months ago
2DDB - a bioinformatics solution for analysis of quantitative proteomics data
Background: We present 2DDB, a bioinformatics solution for storage, integration and analysis of quantitative proteomics data. As the data complexity and the rate with which it is ...
Lars Malmström, György Marko-Varga, Guni...