{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,27]],"date-time":"2025-03-27T09:10:12Z","timestamp":1743066612659,"version":"3.40.3"},"publisher-location":"Cham","reference-count":24,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319201184"},{"type":"electronic","value":"9783319201191"}],"license":[{"start":{"date-parts":[[2015,1,1]],"date-time":"2015-01-01T00:00:00Z","timestamp":1420070400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2015,1,1]],"date-time":"2015-01-01T00:00:00Z","timestamp":1420070400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015]]},"DOI":"10.1007\/978-3-319-20119-1_6","type":"book-chapter","created":{"date-parts":[[2015,6,19]],"date-time":"2015-06-19T10:36:48Z","timestamp":1434710208000},"page":"74-86","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Large-Scale Neo-Heterogeneous Programming and Optimization of SNP Detection on Tianhe-2"],"prefix":"10.1007","author":[{"given":"Yingbo","family":"Cui","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiangke","family":"Liao","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shaoliang","family":"Peng","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yutong","family":"Lu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Canqun","family":"Yang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bingqiang","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chengkun","family":"Wu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2015,6,20]]},"reference":[{"key":"6_CR1","unstructured":"National Center for Biotechnology Information. http:\/\/www.ncbi.nlm.nih.gov\/SNP\/"},{"issue":"6","key":"6_CR2","doi-asserted-by":"publisher","first-page":"1124","DOI":"10.1101\/gr.088013.108","volume":"19","author":"R Li","year":"2009","unstructured":"Li, R., Li, Y., Fang, X.: SNP detection for massively parallel whole-genome resequencing. Genome Res. 19(6), 1124\u20131132 (2009)","journal-title":"Genome Res."},{"key":"6_CR3","unstructured":"Short Oligonucleotide Analysis Package Sites. http:\/\/soap.genomics.org.cn\/index.html"},{"key":"6_CR4","volume-title":"Intel Xeon Phi Coprocessor High Performance Programming","author":"J James","year":"2013","unstructured":"James, J., Reinders, J.: Intel Xeon Phi Coprocessor High Performance Programming. Morgan Kaufmann, Newnes (2013)"},{"key":"6_CR5","doi-asserted-by":"crossref","unstructured":"Liu, X., Smelyanskiy, M., Chow, E., Dubey, P.: Efficient sparse matrix-vector multiplication on x86-based many-core processors. In: Proceedings of the 27th International ACM Conference on International Conference on Supercomputing, pp. 273\u2013282. ACM (2013)","DOI":"10.1145\/2464996.2465013"},{"key":"6_CR6","doi-asserted-by":"crossref","unstructured":"Park, J., Bikshandi, G., Vaidyanathan, K., Tang, P.T.P., Dubey, P., Kim, D.: Tera-scale 1D FFT with low-communication algorithm and Intel$$^{\\textregistered }$$ Xeon Phi$${}^{\\rm TM}$$ coprocessors. In: Proceedings of SC13: International Conference for High Performance Computing, Networking, Storage and Analysis, p. 34. ACM (2013)","DOI":"10.1145\/2503210.2503242"},{"key":"6_CR7","doi-asserted-by":"crossref","unstructured":"Heinecke, A., Vaidyanathan, K., Smelyanskiy, M., Kobotov, A., Dubtsov, R. et al.: Design and implementation of the linpack benchmark for single and multi-node systems based on intel$${}^{\\textregistered }$$ Xeon Phi coprocessor. In: 2013 IEEE 27th International Symposium on Parallel & Distributed Processing (IPDPS), pp. 126\u2013137. IEEE (2013)","DOI":"10.1109\/IPDPS.2013.113"},{"key":"6_CR8","unstructured":"Pennycook, S.J., Hughes, C.J., Smelyanskiy, M., Jarvis, S.A.: Exploring SIMD for molecular dynamics, using intel$${}^{\\textregistered }$$ Xeon$${}^{\\textregistered }$$ processors and intel$${}^{\\textregistered }$$ Xeon Phi coprocessors. In: 2013 IEEE 27th International Symposium on Parallel & Distributed Processing (IPDPS), pp. 1085\u20131097. IEEE (2013)"},{"key":"6_CR9","doi-asserted-by":"crossref","unstructured":"Misra, S., Pamnany, K., Aluru, S.: Parallel mutual information based construction of whole-genome networks on the intel$${}^{\\textregistered }$$ Xeon PhiTM coprocessor. In: 2014 IEEE 28th International Parallel and Distributed Processing Symposium, pp. 241\u2013250. IEEE (2014)","DOI":"10.1109\/IPDPS.2014.35"},{"issue":"4","key":"6_CR10","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1145\/989393.989401","volume":"39","author":"SL Graham","year":"2004","unstructured":"Graham, S.L., Kessler, P.B., McKusick, M.K.: Gprof: a call graph execution profiler. ACM SIGPLAN Not. 39(4), 49\u201357 (2004)","journal-title":"ACM SIGPLAN Not."},{"key":"6_CR11","unstructured":"Wikipedia Sites of VTune. http:\/\/en.wikipedia.org\/wiki\/VTune"},{"key":"6_CR12","unstructured":"TOP500 Supercomputer Sites. http:\/\/www.top500.org\/system\/177999"},{"issue":"1","key":"6_CR13","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1186\/1471-2156-9-23","volume":"9","author":"J Tang","year":"2008","unstructured":"Tang, J., Leunissen, J.A.M., Voorrips, R.E.: HaploSNPer: a web-based allele and SNP de-tection tool. BMC Genet. 9(1), 23 (2008)","journal-title":"BMC Genet."},{"issue":"1","key":"6_CR14","doi-asserted-by":"publisher","first-page":"134","DOI":"10.1186\/1471-2105-12-134","volume":"12","author":"A Dereeper","year":"2011","unstructured":"Dereeper, A., Nicolas, S., Le Cunff, L.: SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects. BMC Bioinform. 12(1), 134 (2011)","journal-title":"BMC Bioinform."},{"issue":"1","key":"6_CR15","doi-asserted-by":"publisher","first-page":"438","DOI":"10.1186\/1471-2105-7-438","volume":"7","author":"J Tang","year":"2006","unstructured":"Tang, J., Vosman, B., Voorrips, R.E.: QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions\/deletions in EST data from diploid and polyploid species. BMC Bioinform. 7(1), 438 (2006)","journal-title":"BMC Bioinform."},{"issue":"16","key":"6_CR16","doi-asserted-by":"publisher","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","volume":"25","author":"H Li","year":"2009","unstructured":"Li, H., Handsaker, B., Wysoker, A.: The sequence alignment\/map format and SAMtools. Bioinformatics 25(16), 2078\u20132079 (2009)","journal-title":"Bioinformatics"},{"issue":"5","key":"6_CR17","doi-asserted-by":"publisher","first-page":"491","DOI":"10.1038\/ng.806","volume":"43","author":"MA DePristo","year":"2011","unstructured":"DePristo, M.A., Banks, E., Poplin, R.: A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nature Genet. 43(5), 491\u2013498 (2011)","journal-title":"Nature Genet."},{"key":"6_CR18","doi-asserted-by":"publisher","first-page":"2041","DOI":"10.1093\/bioinformatics\/btt314","volume":"29","author":"C Raczy","year":"2013","unstructured":"Raczy, C., Petrovski, R., Saunders, C.T.: Isaac: ultra-fast whole-genome secondary analysis on Illumina sequencing platforms. Bioinformatics 29, 2041\u20132043 (2013). btt314","journal-title":"Bioinformatics"},{"issue":"11","key":"6_CR19","doi-asserted-by":"publisher","first-page":"R134","DOI":"10.1186\/gb-2009-10-11-r134","volume":"10","author":"B Langmead","year":"2009","unstructured":"Langmead, B., Schatz, M.C., Lin, J.: Searching for SNPs with cloud computing. Genome Biol. 10(11), R134 (2009)","journal-title":"Genome Biol."},{"key":"6_CR20","doi-asserted-by":"crossref","unstructured":"Shvachko, K., Kuang, H., Radia, S., The hadoop distributed file system. IEEE 26th Symposium on Mass Storage Systems and Technologies (MSST), pp. 1\u201310. IEEE (2010)","DOI":"10.1109\/MSST.2010.5496972"},{"issue":"1","key":"6_CR21","doi-asserted-by":"publisher","first-page":"425","DOI":"10.1186\/1471-2164-14-425","volume":"14","author":"S Zhao","year":"2013","unstructured":"Zhao, S., Prenger, K., Smith, L.: Rainbow: a tool for large-scale whole-genome sequencing data analysis using cloud computing. BMC Genomics 14(1), 425 (2013)","journal-title":"BMC Genomics"},{"key":"6_CR22","doi-asserted-by":"crossref","unstructured":"Lu, M., Zhao, J., Luo, Q.: GSNP: a DNA single-nucleotide polymorphism detection system with GPU acceleration. In: 2011 International Conference on Parallel Processing (ICPP), pp. 592\u2013601. IEEE (2011)","DOI":"10.1109\/ICPP.2011.51"},{"key":"6_CR23","doi-asserted-by":"crossref","unstructured":"Kutlu, M., Agrawal, G.: Cluster-based SNP calling on large-scale genome sequencing data. In: 2014 14th IEEE\/ACM International Symposium on Cluster, Cloud and Grid computing (CCGrid), pp. 455\u2013464. IEEE (2013)","DOI":"10.1109\/CCGrid.2014.111"},{"key":"6_CR24","series-title":"Advances in Intelligent Systems and Computing","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1007\/978-3-319-07581-5_14","volume-title":"8th International Conference on Practical Applications of Computational Biology & Bioinformatics","author":"Y Cui","year":"2014","unstructured":"Cui, Y., Liao, X., Zhu, X.: mBWA: a massively parallel sequence reads aligner. In: Saez-Rodriguez, J., Rocha, M.P., Fdez-Riverola, F., De Paz Santana, J.F. (eds.) PACBB 2014. AISC, vol. 294, pp. 113\u2013120. Springer, Heidelberg (2014)"}],"container-title":["Lecture Notes in Computer Science","High Performance Computing"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-20119-1_6","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,10]],"date-time":"2023-02-10T10:35:21Z","timestamp":1676025321000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-3-319-20119-1_6"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015]]},"ISBN":["9783319201184","9783319201191"],"references-count":24,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-20119-1_6","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2015]]},"assertion":[{"value":"20 June 2015","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}}]}}