GASS: identifying enzyme active sites with genetic algorithms
نویسندگان
چکیده
منابع مشابه
GASS-WEB: a web server for identifying enzyme active sites based on genetic algorithms
Enzyme active sites are important and conserved functional regions of proteins whose identification can be an invaluable step toward protein function prediction. Most of the existing methods for this task are based on active site similarity and present limitations including performing only exact matches on template residues, template size restraints, despite not being capable of finding inter-d...
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Genome sequencing projects have uncovered many novel enzymes and enzyme classes for which knowledge of active site structure and mechanism is limited. To facilitate mechanistic investigations of the numerous enzymes encoded by prokaryotic and eukaryotic genomes, new methods are needed to analyze enzyme function in samples of high biocomplexity. Here, we describe a general strategy for profiling...
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& Priori-like algorithms for association rules mining have relied on two user-specified thresholds: minimum support and minimum confidence. There are two significant challenges to applying these algorithms to real-world applications: database-dependent minimum-support and exponential search space. Database-dependent minimum-support means that users must specify suitable thresholds for their min...
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Various software metrics may be used to quantify object-oriented source code characteristics in order to assess the quality of the software. This type of software quality assessment may be viewed as a problem of classification: given a set of objects with known features (software metrics) and group labels (quality rankings), design a classifier that can predict the quality rankings of new objec...
متن کاملEpigenetic priors for identifying active transcription factor binding sites
MOTIVATION Accurate knowledge of the genome-wide binding of transcription factors in a particular cell type or under a particular condition is necessary for understanding transcriptional regulation. Using epigenetic data such as histone modification and DNase I, accessibility data has been shown to improve motif-based in silico methods for predicting such binding, but this approach has not yet ...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2014
ISSN: 1460-2059,1367-4803
DOI: 10.1093/bioinformatics/btu746