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135
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ENTCS
2006
109views more  ENTCS 2006»
15 years 3 months ago
Specifications via Realizability
We present a system, called RZ, for automatic generation of program specifications from mathematical theories. We translate mathematical theories to specifications by computing th...
Andrej Bauer, Christopher A. Stone
139
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BMCBI
2010
109views more  BMCBI 2010»
15 years 3 months ago
Structural alphabets derived from attractors in conformational space
Background: The hierarchical and partially redundant nature of protein structures justifies the definition of frequently occurring conformations of short fragments as `states'...
Alessandro Pandini, Arianna Fornili, Jens Kleinjun...
128
Voted
BMCBI
2008
103views more  BMCBI 2008»
15 years 3 months ago
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Mallika Veeramalai, Yuzhen Ye, Adam Godzik
157
Voted
ISMB
1996
15 years 5 months ago
A Knowledge-Based Method for Protein Structure Refinement and Prediction
The native conformation of a protein, in a given environment, is determined entirely by the various interatomic interactions dictated by the amino acid sequence (1-3). We describe...
Shankar Subramaniam, David K. Tcheng, James M. Fen...
125
Voted
ALMOB
2008
82views more  ALMOB 2008»
15 years 3 months ago
Protein sequence and structure alignments within one framework
Background: Protein structure alignments are usually based on very different techniques to sequence alignments. We propose a method which treats sequence, structure and even combi...
Gundolf Schenk, Thomas Margraf, Andrew E. Torda