1
Jeremy Daniel Buhler, Roger Dean Chamberlain, Mark Allen Franklin, Kwame Gyang, Arpith Chacko Jacob, Praveen Krishnamurthy, Joseph Marion Lancaster: Method and apparatus for performing similarity searching on a data stream with respect to a query string. Washington University, Thompson Coburn, March 29, 2011: US07917299 (92 worldwide citation)

An apparatus and method for performing similarity searching on a data stream with respect to a query string are disclosed, where the data stream comprises a plurality of data substrings, and where the query string comprises a plurality of query substrings. A programmable logic device is used to filt ...


2
Jeremy Daniel Buhler, Roger Dean Chamberlain, Mark Allen Franklin, Kwame Gyang, Arpith Chacko Jacob, Praveen Krishnamurthy, Joseph Marion Lancaster: Method and apparatus for performing similarity searching. Washington University, Thompson Coburn, August 20, 2013: US08515682 (12 worldwide citation)

A system and method for performing similarity searching is disclosed. This includes a programmable logic device configured to include a pipeline that comprises a matching stage, the matching stage being configured to receive a data stream comprising a plurality of possible matches between a pluralit ...


3
Jeremy Daniel Buhler, Roger Dean Chamberlain, Mark Allen Franklin, Kwame Gyang, Arpith Chacko Jacob, Praveen Krishnamurthy, Joseph Marion Lancaster: Method and apparatus for performing similarity searching. Washington University, Thompson Coburn, Benjamin L Volk Jr, January 17, 2017: US09547680

A system and method for performing similarity searching is disclosed wherein programmable logic devices such as field programmable gate arrays (FPGAs) can be used to implement Bloom filters for identifying possible matches between a query and data. The Bloom filters can be implemented in a parallel ...


4
Jeremy Daniel Buhler, Roger Dean Chamberlain, Mark Allen Franklin, Kwame Gyang, Arpith Chacko Jacob, Praveen Krishnamurthy, Joseph Marion Lancaster: Method and apparatus for performing biosequence similarity searching. Thompson Coburn, March 22, 2007: US20070067108-A1

A system and method for performing biological sequence similarity searching is disclosed. This includes a programmable logic device configured to include a pipeline that comprises a matching stage, the matching stage being configured to receive a data stream comprising a plurality of possible matche ...


5
Roger Dean Chamberlain, Jeremy Daniel Buhler, Arpith Chacko Jacob, Joseph Marion Lancaster, Brandon Baxter Harris: Method and Apparatus for Protein Sequence Alignment Using FPGA Devices. Thompson Coburn, April 10, 2008: US20080086274-A1

Disclosed herein is a hardware implementation for performing sequence alignment that preferably deploys a seed generation stage, an ungapped extension stage, and at least a portion of a gapped extension stage as a data processing pipeline on at least one hardware logic device. Hardware circuits for ...


6
Jeremy Daniel Buhler, Roger Dean Chamberlain, Mark Allen Franklin, Kwame Gyang, Arpith Chacko Jacob, Praveen Krishnamurthy, Joseph Marion Lancaster: Method and Apparatus for Performing Similarity Searching. Washington University, September 22, 2011: US20110231446-A1

A system and method for performing similarity searching is disclosed. This includes a programmable logic device configured to include a pipeline that comprises a matching stage, the matching stage being configured to receive a data stream comprising a plurality of possible matches between a pluralit ...



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