Sequence clustering strategies improve remote homology recognitions while reducing search times
نویسندگان
چکیده
منابع مشابه
Sequence clustering strategies improve remote homology recognitions while reducing search times.
Sequence databases are rapidly growing, thereby increasing the coverage of protein sequence space, but this coverage is uneven because most sequencing efforts have concentrated on a small number of organisms. The resulting granularity of sequence space creates many problems for profile-based sequence comparison programs. In this paper, we suggest several strategies that address these problems, ...
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The protein sequence space is vast and diverse, spanning across different families. Biologically meaningful relationships exist between proteins at superfamily level. However, it is highly challenging to establish convincing relationships at the superfamily level by means of simple sequence searches. It is necessary to design a rigorous sequence search strategy to establish remote homology rela...
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MOTIVATION Sequence homology searches are used in various fields. New sequencing technologies produce huge amounts of sequence data, which continuously increase the size of sequence databases. As a result, homology searches require large amounts of computational time, especially for metagenomic analysis. RESULTS We developed a fast homology search method based on database subsequence clusteri...
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CPHmodels-3.0 is a web server predicting protein 3D structure by use of single template homology modeling. The server employs a hybrid of the scoring functions of CPHmodels-2.0 and a novel remote homology-modeling algorithm. A query sequence is first attempted modeled using the fast CPHmodels-2.0 profile-profile scoring function suitable for close homology modeling. The new computational costly...
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ژورنال
عنوان ژورنال: Protein Engineering, Design and Selection
سال: 2002
ISSN: 1741-0134,1741-0126
DOI: 10.1093/protein/15.8.643