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BMCBI
2006
103views more  BMCBI 2006»
15 years 1 months ago
Cis-motifs upstream of the transcription and translation initiation sites are effectively revealed by their positional disequili
Background: The discovery of cis-regulatory motifs still remains a challenging task even though the number of sequenced genomes is constantly growing. Computational analyses using...
Kenneth W. Berendzen, Kurt Stüber, Klaus Hart...
BMCBI
2006
130views more  BMCBI 2006»
15 years 1 months ago
An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution ma
Background: Quantitative descriptions of amino acid similarity, expressed as probabilistic models of evolutionary interchangeability, are central to many mainstream bioinformatic ...
Blazej Bulka, Marie desJardins, Stephen J. Freelan...
BMCBI
2006
194views more  BMCBI 2006»
15 years 1 months ago
Novel metaheuristic for parameter estimation in nonlinear dynamic biological systems
Background: We consider the problem of parameter estimation (model calibration) in nonlinear dynamic models of biological systems. Due to the frequent ill-conditioning and multi-m...
Maria Rodriguez-Fernandez, Jose A. Egea, Julio R. ...
CPHYSICS
2006
127views more  CPHYSICS 2006»
15 years 1 months ago
GenAnneal: Genetically modified Simulated Annealing
A modification of the standard Simulated Annealing (SA) algorithm is presented for finding the global minimum of a continuous multidimensional, multimodal function. We report resu...
Ioannis G. Tsoulos, Isaac E. Lagaris
BMCBI
2007
164views more  BMCBI 2007»
15 years 1 months ago
SEARCHPATTOOL: a new method for mining the most specific frequent patterns for binding sites with application to prokaryotic DNA
Background: Computational methods to predict transcription factor binding sites (TFBS) based on exhaustive algorithms are guaranteed to find the best patterns but are often limite...
Fathi Elloumi, Martha Nason
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