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AE
2005
Springer
15 years 10 months ago
Incorporating Knowledge of Secondary Structures in a L-System-Based Encoding for Protein Folding
An encoding scheme for protein folding on lattice models, inspired by parametric L-systems, was proposed. The encoding incorporates problem domain knowledge in the form of predesig...
Gabriela Ochoa, Gabi Escuela, Natalio Krasnogor
SDM
2008
SIAM
112views Data Mining» more  SDM 2008»
15 years 6 months ago
A pattern mining approach toward discovering generalized sequence signatures
Typically, sequence signatures, such as motifs and domains, are assumed to be localized in one region of a sequence or are derived as combinations of the former. We generalize the...
Dietmar H. Dorr, Anne Denton
ISMB
2000
15 years 6 months ago
A Statistical Method for Finding Transcription Factor Binding Sites
Understanding the mechanismsthat determine the regulation of geneexpression is an important and challenging problem. A fundamental subproblem is to identify DNA-bindingsites for u...
Saurabh Sinha, Martin Tompa
JCB
2008
75views more  JCB 2008»
15 years 4 months ago
New, Improved, and Practical k-Stem Sequence Similarity Measures for Probe Design
We define new measures of sequence similarity for oligonucleotide probe design. These new measures incorporate the nearest neighbor k-stem motifs in their definition, but can be e...
Anthony J. Macula, Alexander Schliep, Morgan A. Bi...
NAR
2006
107views more  NAR 2006»
15 years 4 months ago
CorGen - measuring and generating long-range correlations for DNA sequence analysis
CorGen is a web server that measures long-range correlations in the base composition of DNA and generates random sequences with the same correlation parameters. Long-range correla...
Philipp W. Messer, Peter F. Arndt