Definition and identification of homology domains

A method is described for identifying and evaluating regions of significant similarity between two sequences. The notion of a ‘homology domain’ is employed which defines the boundaries of a region of sequence homology containing no insertions or deletions. The relative significance of different pote...

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Bibliographic Details
Published in:Bioinformatics 1988-03, Vol.4 (1), p.25-33
Main Authors: Lawrence, Charles B., Goldman, Daniel A.
Format: Article
Language:English
Subjects:
Algorithms
Amino Acid Sequence
Animals
Base Sequence
Biological and medical sciences
Biological Evolution
Biotechnology
Fundamental and applied biological sciences. Psychology
Genes. Genome
Genetic engineering
Genetic technics
Humans
Information Systems
Methods. Procedures. Technologies
Models, Genetic
Molecular and cellular biology
Molecular genetics
Sequence Homology, Nucleic Acid
Software
Synthetic digonucleotides and genes. Sequencing
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Summary:A method is described for identifying and evaluating regions of significant similarity between two sequences. The notion of a ‘homology domain’ is employed which defines the boundaries of a region of sequence homology containing no insertions or deletions. The relative significance of different potential homology domains is evaluated using a non-linear similarity score related to the probability of finding the observed level of similarity in the region by chance. The sensitivity of the method is demonstrated by simulating the evolution of homology domains and applying the method to their detection. Several examples of the use of homology domain identification are given.
ISSN:1367-4803
0266-7061
1460-2059
DOI:10.1093/bioinformatics/4.1.25