Method and system for faster and more sensitive homology...

Details Method and system for faster and more sensitive homology... Method and system for faster and more sensitive homology...

G - Physics

06

F

G06F 19/22 (2011.01) C12Q 1/68 (2006.01)

Patent

CA 2402048

An area of research in the field of bioinformatics deals with the identification of similarities within one, or between two DNA sequences. Current techniques are quite slow and many matches are missed. The invention provides a faster and more sensitive solution, by using "optimised spaced seeds" to perform these biological sequence homology searches. Various techniques are shown for identifying seeds which are optimized to improve the sensitivity or speed of the searching. In the preferred embodiment, optimized spaced seeds are determined by the parameters of the search and independent of the actual databases being searched (for example, using the length and weight of the spaced seed, as well as the probability of a hit in a similar region). Thus, these optimized seeds can be stored in libraries which are accessed as required.

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