Sequence information signal processor for local and global string comparisons
US5632041A · kind A · utility
Assignee
Inventors
Key dates
| Filing date | Nov 18, 1993 |
| Grant date | May 20, 1997 |
| Priority date | — |
| Expiry date | Nov 18, 2013 |
Classification
- Technology area (CPC G)Physics
- CPC primaryG06F2201/83
- WIPO fieldComputer technology
- WIPO sectorElectrical engineering
Abstract
A sequence information signal processing integrated circuit chip designed to perform high speed calculation of a dynamic programming algorithm based upon the algorithm defined by Waterman and Smith. The signal processing chip of the present invention is designed to be a building block of a linear systolic array, the performance of which can be increased by connecting additional sequence information signal processing chips to the array. The chip provides a high speed, low cost linear array processor that can locate highly similar global sequences or segments thereof such as contiguous subsequences from two different DNA or protein sequences. The chip is implemented in a preferred embodiment using CMOS VLSI technology to provide the equivalent of about 400,000 transistors or 100,000 gates. Each chip provides 16 processing elements, and is designed to provide 16 bit, two's compliment operation for maximum score precision of between -32,768 and +32,767. It is designed to provide a comparison between sequences as long as 4,194,304 elements without external software and between sequences of unlimited numbers of elements with the aid of external software. Each sequence can be assigned dif…
Source: USPTO / EPO open patent data. Objective bibliographic and citation counts.