A rapid method for detecting interconnections between functionally and/or evolutionary close biological sequences
It is now common practice to retrieve, by key words, highly specialized selections of sequences from general-purpose databases such as EMBL, GenBank, etc. The sequences included in a selection are often interconnected, which means that there are duplications, embeddings, intersections, homology, com...
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Published in | Molekuliarnaia biologiia Vol. 35; no. 6; p. 1015 |
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Main Authors | , , |
Format | Journal Article |
Language | Russian |
Published |
Russia (Federation)
01.11.2001
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Subjects | |
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Abstract | It is now common practice to retrieve, by key words, highly specialized selections of sequences from general-purpose databases such as EMBL, GenBank, etc. The sequences included in a selection are often interconnected, which means that there are duplications, embeddings, intersections, homology, common structural elements. Knowledge of these interconnections is necessary for further processing of the sequences. We propose a rapid (single scan) method for identification of such interconnections by means of complexity analysis that generalizes the Lempel-Ziv approach. Analysis of a selection of 5'-flanking regions of vertebrate growth hormone genes from EMBL is presented as an example. |
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AbstractList | It is now common practice to retrieve, by key words, highly specialized selections of sequences from general-purpose databases such as EMBL, GenBank, etc. The sequences included in a selection are often interconnected, which means that there are duplications, embeddings, intersections, homology, common structural elements. Knowledge of these interconnections is necessary for further processing of the sequences. We propose a rapid (single scan) method for identification of such interconnections by means of complexity analysis that generalizes the Lempel-Ziv approach. Analysis of a selection of 5'-flanking regions of vertebrate growth hormone genes from EMBL is presented as an example. |
Author | Nemytikova, L A Chuzhanova, N A Gusev, V D |
Author_xml | – sequence: 1 givenname: V D surname: Gusev fullname: Gusev, V D email: gusev@math.nsc.ru organization: Department of Computer Science, Cardiff University, PO. Box 916, Cardiff, CF24 3XF, UK. gusev@math.nsc.ru – sequence: 2 givenname: L A surname: Nemytikova fullname: Nemytikova, L A – sequence: 3 givenname: N A surname: Chuzhanova fullname: Chuzhanova, N A |
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SubjectTerms | Databases, Nucleic Acid Evolution, Molecular Repetitive Sequences, Nucleic Acid |
Title | A rapid method for detecting interconnections between functionally and/or evolutionary close biological sequences |
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