Hardware Acceleration of HMMER on FPGAs
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[1] Pat Hanrahan,et al. ClawHMMER: A Streaming HMMer-Search Implementation , 2005, SC.
[2] Brandon Harris,et al. Accelerator design for protein sequence HMM search , 2006, ICS '06.
[3] L. Holm,et al. The Pfam protein families database , 2005, Nucleic Acids Res..
[4] Bertil Schmidt,et al. Accelerating the Viterbi Algorithm for Profile Hidden Markov Models Using Reconfigurable Hardware , 2006, International Conference on Computational Science.
[5] Patrice Quinton. Automatic synthesis of systolic arrays from uniform recurrent equations , 1984, ISCA '84.
[6] Dominique Lavenier,et al. Cluster of re-configurable nodes for scanning large genomic banks , 2005, Parallel Comput..
[7] FeautrierPaul. Some efficient solutions to the affine scheduling problem , 1992 .
[8] D. Haussler,et al. Hidden Markov models in computational biology. Applications to protein modeling. , 1993, Journal of molecular biology.
[9] Erik R. Altman,et al. Proceedings of the ACM International Conference on Parallel Architectures and Compilation Techniques , 2006, PACT 2006.
[10] P. Quinton. Automatic synthesis of systolic arrays from uniform recurrent equations , 1984, ISCA 1984.
[11] Bertil Schmidt,et al. High Performance Database Searching with HMMer on FPGAs , 2007, 2007 IEEE International Parallel and Distributed Processing Symposium.
[12] Paul Feautrier,et al. Some efficient solutions to the affine scheduling problem. Part II. Multidimensional time , 1992, International Journal of Parallel Programming.
[13] Nick Barrow-Williams,et al. Proximity coherence for chip multiprocessors , 2010, 2010 19th International Conference on Parallel Architectures and Compilation Techniques (PACT).
[14] Robert D. Finn,et al. The Pfam protein families database , 2004, Nucleic Acids Res..
[15] Susmita Sur-Kolay,et al. Combining Instruction and Loop Level Parallelism for FPGAs , 2001, The 9th Annual IEEE Symposium on Field-Programmable Custom Computing Machines (FCCM'01).
[16] Paul Feautrier,et al. Some efficient solutions to the affine scheduling problem. I. One-dimensional time , 1992, International Journal of Parallel Programming.
[17] Xinchun Liu,et al. A Reconfigurable Index FLASH Memory tailored to Seed-Based Genomic Sequence Comparison Algorithms , 2007, J. VLSI Signal Process..
[18] Dan I. Moldovan,et al. Partitioning and Mapping Algorithms into Fixed Size Systolic Arrays , 1986, IEEE Transactions on Computers.
[19] Frédéric Vivien,et al. Constructing and exploiting linear schedules with prescribed parallelism , 2002, TODE.
[20] Patrick Crowley,et al. Exploiting coarse-grained parallelism to accelerate protein motif finding with a network processor , 2005, 14th International Conference on Parallel Architectures and Compilation Techniques (PACT'05).
[21] Pat Hanrahan,et al. ClawHMMER: A Streaming HMMer-Search Implementatio , 2005, ACM/IEEE SC 2005 Conference (SC'05).
[22] Bashar Qudah,et al. Accelerating the HMMER sequence analysis suite using conventional processors , 2006, 20th International Conference on Advanced Information Networking and Applications - Volume 1 (AINA'06).
[23] Bertil Schmidt,et al. Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW , 2005, Bioinform..
[24] Susmita Sur-Kolay,et al. Combined instruction and loop parallelism in array synthesis for FPGAs , 2001, International Symposium on System Synthesis (IEEE Cat. No.01EX526).
[25] Bertil Schmidt,et al. Hyper customized processors for bio-sequence database scanning on FPGAs , 2005, FPGA '05.
[26] Patrice Quinton,et al. Hardware synthesis for multi-dimensional time , 2003, Proceedings IEEE International Conference on Application-Specific Systems, Architectures, and Processors. ASAP 2003.