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» Computing with Evolving Proteins
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SAC
2005
ACM
15 years 4 months ago
Finding saddle points using stability boundaries
The task of finding saddle points on potential energy surfaces plays a crucial role in understanding the dynamics of a micro-molecule as well as in studying the folding pathways ...
Chandan K. Reddy, Hsiao-Dong Chiang
WABI
2005
Springer
15 years 4 months ago
Rotamer-Pair Energy Calculations Using a Trie Data Structure
Abstract. Protein design software places amino acid side chains by precomputing rotamer-pair energies and optimizing rotamer placement. If the software optimizes by rapid stochasti...
Andrew Leaver-Fay, Brian Kuhlman, Jack Snoeyink
ISMB
1994
15 years 11 days ago
An Efficient Method for Multiple Sequence Alignment
Multiple sequence alignment has been a useful methodin the study of molecular evolution and sequence-structure relationships. This paper presents a newmethodfor multiple sequence ...
Jin Kim, Sakti Pramanik
UC
2010
Springer
14 years 9 months ago
Characterising Enzymes for Information Processing: Towards an Artificial Experimenter
The information processing capabilities of many proteins are currently unexplored. The complexities and high dimensional parameter spaces make their investigation impractical. Diff...
Chris Lovell, Gareth Jones, Steve R. Gunn, Klaus-P...
ACSC
2005
IEEE
15 years 4 months ago
Graph Grammar Encoding and Evolution of Automata Networks
The global dynamics of automata networks (such as neural networks) are a function of their topology and the choice of automata used. Evolutionary methods can be applied to the opt...
Martin H. Luerssen