Sequence information signal processor

Patent · Fri Jan 01 00:00:00 EST 1999

OSTI ID:872571

Peterson, John C ^[1]; Chow, Edward T ^[2]; Waterman, Michael S ^[3]; Hunkapillar, Timothy J ^[4]

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1. Alta Loma, CA
2. San Dimas, CA
3. Culver City, CA
4. Pasadena, CA

An electronic circuit is used to compare two sequences, such as genetic sequences, to determine which alignment of the sequences produces the greatest similarity. The circuit includes a linear array of series-connected processors, each of which stores a single element from one of the sequences and compares that element with each successive element in the other sequence. For each comparison, the processor generates a scoring parameter that indicates which segment ending at those two elements produces the greatest degree of similarity between the sequences. The processor uses the scoring parameter to generate a similar scoring parameter for a comparison between the stored element and the next successive element from the other sequence. The processor also delivers the scoring parameter to the next processor in the array for use in generating a similar scoring parameter for another pair of elements. The electronic circuit determines which processor and alignment of the sequences produce the scoring parameter with the highest value.

• Research Organization: California Institute of Technology (CalTech), Pasadena, CA (United States)
• DOE Contract Number: FG03-88ER60683
• Assignee: California Institute of Technology (Pasadena, CA)
• Patent Number(s): US 5964860
• OSTI ID: 872571
• Country of Publication: United States
• Language: English

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