{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,12]],"date-time":"2025-10-12T19:54:31Z","timestamp":1760298871146},"reference-count":57,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","issue":"1","license":[{"start":{"date-parts":[[2014,2,1]],"date-time":"2014-02-01T00:00:00Z","timestamp":1391212800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE Des. Test"],"published-print":{"date-parts":[[2014,2]]},"DOI":"10.1109\/mdat.2013.2293757","type":"journal-article","created":{"date-parts":[[2014,1,31]],"date-time":"2014-01-31T17:39:45Z","timestamp":1391189985000},"page":"19-30","source":"Crossref","is-referenced-by-count":55,"title":["A Review of Hardware Acceleration for Computational Genomics"],"prefix":"10.1109","volume":"31","author":[{"given":"Srinivas","family":"Aluru","sequence":"first","affiliation":[]},{"given":"Nagakishore","family":"Jammula","sequence":"additional","affiliation":[]}],"member":"263","reference":[{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2011.115"},{"key":"ref38","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2011.33"},{"key":"ref33","doi-asserted-by":"publisher","DOI":"10.1109\/FCCM.2007.36"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"189","DOI":"10.1007\/s11265-007-0069-2","article-title":"A general reconfigurable architecture for the BLAST algorithm","volume":"48","author":"sotiriades","year":"2007","journal-title":"The J VLSI Signal Process Syst Signal Image Video Technol"},{"key":"ref31","doi-asserted-by":"publisher","DOI":"10.1093\/comjnl\/bxp086"},{"key":"ref30","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-01970-8_96"},{"key":"ref37","author":"glasco","year":"2012","journal-title":"An Analysis of BLASTP Implementation on NVIDIA GPUs"},{"key":"ref36","article-title":"A systolic array-based FPGA parallel architecture for the BLAST algorithm","volume":"2012","author":"xinyu","year":"2012","journal-title":"ISRN Bioinform"},{"key":"ref35","doi-asserted-by":"publisher","DOI":"10.1109\/TVLSI.2012.2196060"},{"key":"ref34","doi-asserted-by":"publisher","DOI":"10.1145\/1810085.1810099"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.1109\/AHS.2011.5963959"},{"key":"ref27","first-page":"121","article-title":"MSA-CUDA: Multiple sequence alignment on graphics processing units with CUDA","author":"liu","year":"2009","journal-title":"Proc 20th IEEE Int Conf Application-Specific Syst Architect Processors (ASAP)"},{"key":"ref29","doi-asserted-by":"publisher","DOI":"10.1016\/j.jpdc.2012.04.004"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1007\/BF02427852"},{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1201\/9781420036275"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.1016\/j.parco.2008.04.001"},{"key":"ref22","doi-asserted-by":"publisher","DOI":"10.1155\/2012\/752910"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.5772\/23044"},{"key":"ref24","doi-asserted-by":"crossref","DOI":"10.1109\/HPCASIA.2005.96","article-title":"To accelerate multiple sequence alignment using FPGAs","author":"lin","year":"2005","journal-title":"Proc Eighth Int Conf High-Performance Comput Asia-Pacific Region"},{"key":"ref23","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bti508"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1109\/FCCM.2012.38"},{"key":"ref25","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-12-466"},{"key":"ref50","doi-asserted-by":"publisher","DOI":"10.1007\/s10619-012-7099-x"},{"key":"ref51","article-title":"Soap3: Gpu-based compressed indexing and ultra-fast parallel alignment of short reads","author":"liu","year":"2011","journal-title":"Proc Third Workshop on Massive Data Algorithmics"},{"key":"ref57","article-title":"An efficient and scalable semiconductor architecture for parallel automata processing","author":"dlugosch","year":"2013","journal-title":"IEEE Trans Parallel Distrib Syst"},{"key":"ref56","doi-asserted-by":"publisher","DOI":"10.1109\/BIBE.2012.6399733"},{"key":"ref55","first-page":"37s","article-title":"Hybrid-core computing for high-throughput bioinformatics","volume":"22","author":"vacek","year":"2011","journal-title":"J Biomolecular Techn (JBT)"},{"key":"ref54","author":"r\ufffdegg","year":"2013","journal-title":"Parallelized FPGA-based Graph Creation for de Novo Genome Assembly"},{"key":"ref53","doi-asserted-by":"publisher","DOI":"10.1109\/FCCM.2013.25"},{"key":"ref52","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0065632"},{"key":"ref10","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2009.5161214"},{"key":"ref11","doi-asserted-by":"publisher","DOI":"10.1145\/1328554.1328565"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq644"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1109\/TC.2010.42"},{"key":"ref13","author":"strengholt","year":"2013","journal-title":"Acceleration of the Smith-Waterman Algorithm for DNA Sequence Alignment Using an FPGA Platform"},{"key":"ref14","author":"geers","year":"2013","journal-title":"Low-Cost Smith-Waterman Acceleration"},{"key":"ref15","doi-asserted-by":"publisher","DOI":"10.1109\/TVLSI.2008.2005314"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2007.370438"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1109\/ASAP.2010.5540796"},{"key":"ref18","first-page":"1","article-title":"A tile-based parallel viterbi algorithm for biological sequence alignment on GPU with CUDA","author":"du","year":"2010","journal-title":"Proc IEEE Int Parallel Distrib Processing Symp Workshops and PhD Forum (IPDPSW)"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1016\/j.parco.2011.03.003"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1109\/TPDS.2004.86"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"264","DOI":"10.1016\/S0743-7315(03)00010-8","article-title":"Parallel biological sequence comparison using prefix computations","volume":"63","author":"aluru","year":"2003","journal-title":"J Parallel Distrib Comput"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1109\/ISCAS.2010.5537736"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1109\/TENCON.2005.300963"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2008.4536328"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1109\/TPDS.2007.1069"},{"key":"ref49","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2012.49"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1109\/TC.2009.133"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-14-67"},{"key":"ref45","doi-asserted-by":"publisher","DOI":"10.1109\/FCCM.2013.57"},{"key":"ref48","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts276"},{"key":"ref47","doi-asserted-by":"publisher","DOI":"10.1016\/j.mejo.2013.05.004"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPSW.2013.28"},{"key":"ref41","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-14-117"},{"key":"ref44","doi-asserted-by":"publisher","DOI":"10.1109\/FCCM.2012.36"},{"key":"ref43","doi-asserted-by":"publisher","DOI":"10.1109\/MEMCOD.2012.6292304"}],"container-title":["IEEE Design & Test"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx7\/6221038\/6746688\/06678734.pdf?arnumber=6678734","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,1,12]],"date-time":"2022-01-12T16:30:36Z","timestamp":1642005036000},"score":1,"resource":{"primary":{"URL":"http:\/\/ieeexplore.ieee.org\/document\/6678734\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,2]]},"references-count":57,"journal-issue":{"issue":"1"},"URL":"https:\/\/doi.org\/10.1109\/mdat.2013.2293757","relation":{},"ISSN":["2168-2356","2168-2364"],"issn-type":[{"value":"2168-2356","type":"print"},{"value":"2168-2364","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,2]]}}}