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» Computing with Evolving Proteins
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RECOMB
2003
Springer
15 years 10 months ago
Modeling dependencies in protein-DNA binding sites
The availability of whole genome sequences and high-throughput genomic assays opens the door for in silico analysis of transcription regulation. This includes methods for discover...
Yoseph Barash, Gal Elidan, Nir Friedman, Tommy Kap...
CIBCB
2006
IEEE
15 years 4 months ago
A Stochastic model to estimate the time taken for Protein-Ligand Docking
Abstract— Quantum mechanics and molecular dynamic simulation provide important insights into structural configurations and molecular interaction data today. To extend this atomi...
Preetam Ghosh, Samik Ghosh, Kalyan Basu, Sajal K. ...
RECOMB
2001
Springer
15 years 2 months ago
Extracting structural information using time-frequency analysis of protein NMR data
High-throughput, data-directed computational protocols for Structural Genomics (or Proteomics) are required in order to evaluate the protein products of genes for structure and fu...
Christopher James Langmead, Bruce Randall Donald
RECOMB
2006
Springer
15 years 10 months ago
A New Approach to Protein Identification
Advances in tandem mass-spectrometry (MS/MS) steadily increase the rate of generation of MS/MS spectra and make it more computationally challenging to analyze such huge datasets. A...
Nuno Bandeira, Dekel Tsur, Ari Frank, Pavel A. Pev...
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BMCBI
2011
14 years 1 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...