{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T04:35:28Z","timestamp":1750221328940,"version":"3.41.0"},"reference-count":14,"publisher":"Institute of Electronics, Information and Communications Engineers (IEICE)","issue":"5","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEICE Trans. Inf. & Syst."],"published-print":{"date-parts":[[2017]]},"DOI":"10.1587\/transinf.2016edp7262","type":"journal-article","created":{"date-parts":[[2017,4,30]],"date-time":"2017-04-30T22:14:36Z","timestamp":1493590476000},"page":"1016-1025","source":"Crossref","is-referenced-by-count":2,"title":["A Fast and Accurate FPGA System for Short Read Mapping Based on Parallel Comparison on Hash Table"],"prefix":"10.1587","volume":"E100.D","author":[{"given":"Yoko","family":"SOGABE","sequence":"first","affiliation":[{"name":"Graduate School of Systems and Information Engineering, University of Tsukuba"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tsutomu","family":"MARUYAMA","sequence":"additional","affiliation":[{"name":"Graduate School of Systems and Information Engineering, University of Tsukuba"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"532","reference":[{"key":"1","doi-asserted-by":"crossref","unstructured":"[1] B. Langmead, C. Trapnell, M. Pop, and S.L. Salzberg, \u201cUltrafast and memory-efficient alignment of short dna sequences to the human genome,\u201d Genome Biology, vol.10, no.3, 2009.","DOI":"10.1186\/gb-2009-10-3-r25"},{"key":"2","doi-asserted-by":"crossref","unstructured":"[2] B. Langmead and S.L. Salzberg, \u201cFast gapped-read alignment with bowtie 2,\u201d Nature Methods, vol.9, no.4, pp.357-359, 2012.","DOI":"10.1038\/nmeth.1923"},{"key":"3","doi-asserted-by":"crossref","unstructured":"[3] H. Li and R. Durbin, \u201cFast and accurate short read alingment with burrows-wheeler transform,\u201d Bioinformatics, vol.25, no.4, pp.1754-1760, 2009.","DOI":"10.1093\/bioinformatics\/btp324"},{"key":"4","doi-asserted-by":"crossref","unstructured":"[4] N. Homer, B. Merriman, and S.F. Nelson, \u201cBfast: An alignment tool for large scale genome resequencing,\u201d PLoS ONE, vol.4, no.11, p.e7767, 2009.","DOI":"10.1371\/journal.pone.0007767"},{"key":"5","doi-asserted-by":"crossref","unstructured":"[5] C.B. Olson, M. Kim, C. Clauson, B. Kogon, C. Ebeling, S. Hauck, and W.L. Ruzzo, \u201cHardware acceleration of short read mapping,\u201d FCCM, pp.161-168, 2012.","DOI":"10.1109\/FCCM.2012.36"},{"key":"6","doi-asserted-by":"crossref","unstructured":"[6] J. Arram, K.H. Tsoi, W. Luk, and P. Jiang, \u201cHardware acceleration of genetic sequence alignment,\u201d ARC, vol.7806, pp.13-24, 2013.","DOI":"10.1007\/978-3-642-36812-7_2"},{"key":"7","unstructured":"[7] H.M. Waidyasooriya, M. Hariyama, and M. Kameyama, \u201cFpga-accelerator for dna sequence alignment based on an efficient data-dependent memory access scheme,\u201d Proc. 5th International Symposium on Highly-Efficient Accelerators and Reconfigurable Technologies (HEART), pp.127-130, 2014."},{"key":"8","doi-asserted-by":"crossref","unstructured":"[8] E.B. Fernandez, J. Villarreal, S. Lonardi, and W.A. Najjar, \u201cFhast: Fpga-based acceleration of bowtie in hardware,\u201d Computational Biology and Bioinformatics, IEEE\/ACM Transactions on, vol.12, no.5, pp.973-981, 2015.","DOI":"10.1109\/TCBB.2015.2405333"},{"key":"9","doi-asserted-by":"crossref","unstructured":"[9] Y. Sogabe and T. Maruyama, \u201cAn acceleration method of short read mapping using fpga,\u201d Field-Programmable Technology (FPT), 2013 International Conference on, pp.350-353, IEEE, 2013.","DOI":"10.1109\/FPT.2013.6718385"},{"key":"10","doi-asserted-by":"crossref","unstructured":"[10] Y. Sogabe and T. Maruyama, \u201cFpga acceleration of short read mapping based on sort and parallel comparison,\u201d Field Programmable Logic and Applications (FPL), 2014 24th International Conference on, pp.1-4, IEEE, 2014.","DOI":"10.1109\/FPL.2014.6927404"},{"key":"11","doi-asserted-by":"crossref","unstructured":"[11] Y. Sogabe and T. Maruyama, \u201cA variable length hash method for faster short read mapping on FPGA,\u201d Field Programmable Logic and Applications (FPL), 2015 25th International Conference on, pp.1-6, IEEE, 2015.","DOI":"10.1109\/FPL.2015.7293938"},{"key":"12","doi-asserted-by":"crossref","unstructured":"[12] P. Ferragina and G. Manzini, \u201cOpportunistic data structures with applications,\u201d Proceedings of the Annual Symposium on Foundations of Computer Science, pp.390-398, 2000.","DOI":"10.1109\/SFCS.2000.892127"},{"key":"13","unstructured":"[13] M. Burrows and D.J. Wheeler, \u201cA block-sorting lossless data compression algorithm,\u201d Digital Equipment Corporation, Technical report 124, 1994."},{"key":"14","doi-asserted-by":"crossref","unstructured":"[14] Y. Yamaguchi, T. Maruyama, and A. Konagaya, \u201cHigh speed homology search with FPGAs,\u201d PSB, pp.271-282, 2002.","DOI":"10.1142\/9789812799623_0025"}],"container-title":["IEICE Transactions on Information and Systems"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.jstage.jst.go.jp\/article\/transinf\/E100.D\/5\/E100.D_2016EDP7262\/_pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T02:14:34Z","timestamp":1750212874000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.jstage.jst.go.jp\/article\/transinf\/E100.D\/5\/E100.D_2016EDP7262\/_article"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017]]},"references-count":14,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2017]]}},"URL":"https:\/\/doi.org\/10.1587\/transinf.2016edp7262","relation":{},"ISSN":["0916-8532","1745-1361"],"issn-type":[{"type":"print","value":"0916-8532"},{"type":"electronic","value":"1745-1361"}],"subject":[],"published":{"date-parts":[[2017]]}}}