{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,26]],"date-time":"2025-03-26T06:03:21Z","timestamp":1742969001332,"version":"3.40.3"},"publisher-location":"Cham","reference-count":19,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319589428"},{"type":"electronic","value":"9783319589435"}],"license":[{"start":{"date-parts":[[2017,1,1]],"date-time":"2017-01-01T00:00:00Z","timestamp":1483228800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springer.com\/tdm"},{"start":{"date-parts":[[2017,1,1]],"date-time":"2017-01-01T00:00:00Z","timestamp":1483228800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017]]},"DOI":"10.1007\/978-3-319-58943-5_40","type":"book-chapter","created":{"date-parts":[[2017,5,27]],"date-time":"2017-05-27T08:42:07Z","timestamp":1495874527000},"page":"492-503","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Optimized Execution Strategies for Sequence Aligners on NUMA Architectures"],"prefix":"10.1007","author":[{"given":"Josefina","family":"Lenis","sequence":"first","affiliation":[]},{"given":"Miquel Angel","family":"Senar","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2017,5,28]]},"reference":[{"issue":"24","key":"40_CR1","doi-asserted-by":"crossref","first-page":"4003","DOI":"10.1093\/bioinformatics\/btv506","volume":"31","author":"JM Abu\u00edn","year":"2015","unstructured":"Abu\u00edn, J.M., Pichel, J.C., Pena, T.F., Amigo, J.: BigBWA: approaching the Burrows-Wheeler aligner to Big Data technologies. Bioinformatics 31(24), 4003\u20134005 (2015)","journal-title":"Bioinformatics"},{"key":"40_CR2","doi-asserted-by":"crossref","unstructured":"Fonseca, N.A., Rung, J., Brazma, A., Marioni, J.C.: Tools for mapping high-throughput sequencing data: supplement. Bioinformatics 1\u20139 (2012)","DOI":"10.1093\/bioinformatics\/bts605"},{"issue":"07","key":"40_CR3","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1142\/S0129183112300011","volume":"23","author":"P Garc\u00eda-Risue\u00f1o","year":"2012","unstructured":"Garc\u00eda-Risue\u00f1o, P., Iba\u00f1ez, P.E.: A review of High Performance Computing foundations for scientists. Int. J. Mod. Phys. C 23(07), 1\u201333 (2012)","journal-title":"Int. J. Mod. Phys. C"},{"key":"40_CR4","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"publisher","first-page":"227","DOI":"10.1007\/978-3-642-55195-6_21","volume-title":"Parallel Processing and Applied Mathematics","author":"C Herzeel","year":"2014","unstructured":"Herzeel, C., Ashby, T.J., Costanza, P., Meuter, W.: Resolving load balancing issues in BWA on NUMA multicore architectures. In: Wyrzykowski, R., Dongarra, J., Karczewski, K., Wa\u015bniewski, J. (eds.) PPAM 2013. LNCS, vol. 8385, pp. 227\u2013236. Springer, Heidelberg (2014). doi:10.1007\/978-3-642-55195-6_21"},{"key":"40_CR5","doi-asserted-by":"publisher","first-page":"6275","DOI":"10.1038\/ncomms7275","volume":"6","author":"G Highnam","year":"2015","unstructured":"Highnam, G., Wang, J.J., Kusler, D., Zook, J., Vijayan, V., Leibovich, N., Mittelman, D.: An analytical framework for optimizing variant discovery from personal genomes. Nat. Commun. 6, 6275 (2015)","journal-title":"Nat. Commun."},{"key":"40_CR6","unstructured":"Kl\u00f6ckner, A.: Lec8-Demo (2012). http:\/\/github.com\/hpc12\/lec8-demo"},{"key":"40_CR7","unstructured":"Lameter, C., Hsu, B., Sosnick-P\u00e9rez, M.: NUMA (Non-Uniform Memory Access): an overview. ACMQueue 1\u201312 (2013)"},{"issue":"4","key":"40_CR8","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1038\/nmeth.1923","volume":"9","author":"B Langmead","year":"2012","unstructured":"Langmead, B., Salzberg, S.L.: Fast gapped-read alignment with Bowtie 2. Nat. Methods 9(4), 357\u2013359 (2012)","journal-title":"Nat. Methods"},{"key":"40_CR9","doi-asserted-by":"crossref","unstructured":"Lenis, J., Senar, M.A.: On the performance of BWA on NUMA architectures. In: 2015 IEEE Trustcom\/BigDataSE\/ISPA, pp. 236\u2013241 (2015)","DOI":"10.1109\/Trustcom.2015.638"},{"key":"40_CR10","unstructured":"Li, H.: Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM, p. 3 (2013). arXiv preprint: arXiv:1303.3997"},{"issue":"14","key":"40_CR11","doi-asserted-by":"publisher","first-page":"1754","DOI":"10.1093\/bioinformatics\/btp324","volume":"25","author":"H Li","year":"2009","unstructured":"Li, H., Durbin, R.: Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25(14), 1754\u20131760 (2009)","journal-title":"Bioinformatics"},{"issue":"5","key":"40_CR12","doi-asserted-by":"publisher","first-page":"473","DOI":"10.1093\/bib\/bbq015","volume":"11","author":"H Li","year":"2010","unstructured":"Li, H., Homer, N.: A survey of sequence alignment algorithms for next-generation sequencing. Brief. Bioinform. 11(5), 473\u2013483 (2010)","journal-title":"Brief. Bioinform."},{"key":"40_CR13","doi-asserted-by":"publisher","first-page":"1185","DOI":"10.1038\/nmeth.2221","volume":"9","author":"S Marco-Sola","year":"2012","unstructured":"Marco-Sola, S., Sammeth, M., Guig\u00f3, R., Ribeca, P.: The GEM mapper: fast, accurate and versatile alignment by filtration. Nat. Methods 9, 1185\u20131188 (2012)","journal-title":"Nat. Methods"},{"key":"40_CR14","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2014\/539410","volume":"2014","author":"C Misale","year":"2014","unstructured":"Misale, C., Ferrero, G., Torquati, M., Aldinucci, M.: Sequence alignment tools: one parallel pattern to rule them all? BioMed Res. Int. 2014, 1\u201312 (2014)","journal-title":"BioMed Res. Int."},{"key":"40_CR15","doi-asserted-by":"crossref","unstructured":"Molka, D., Hackenberg, D., Sch\u00f6ne, R.: Main memory and cache performance of intel sandy bridge and amd bulldozer. In: Workshop on Memory Systems Performance and Correctness, MSPC 2014, pp. 4:1\u20134:10. ACM, New York (2014)","DOI":"10.1145\/2618128.2618129"},{"key":"40_CR16","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1155\/2014\/309650","volume":"2014","author":"J Shang","year":"2014","unstructured":"Shang, J., Zhu, F., Vongsangnak, W., Tang, Y., Zhang, W., Shen, B.: Evaluation and comparison of multiple aligners for next-generation sequencing data analysis. BioMed Res. Int. 2014, 1\u201316 (2014)","journal-title":"BioMed Res. Int."},{"issue":"5","key":"40_CR17","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1038\/nbt0509-455","volume":"27","author":"C Trapnell","year":"2009","unstructured":"Trapnell, C., Salzberg, S.L.: How to map billions of short reads onto genomes. Nat. Biotechnol. 27(5), 455\u2013457 (2009)","journal-title":"Nat. Biotechnol."},{"key":"40_CR18","unstructured":"Zaharia, M., Bolosky, W., Curtis, K.: Faster and more accurate sequence alignment with SNAP, pp. 1\u201310 (2011). arXiv preprint: arXiv:1111.5572v1"},{"key":"40_CR19","unstructured":"Zook, J.M., et al.: Extensive sequencing of seven human genomes to characterize benchmark reference materials, p. 26468 (2015). (bioRxiv)"}],"container-title":["Lecture Notes in Computer Science","Euro-Par 2016: Parallel Processing Workshops"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-58943-5_40","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,8,23]],"date-time":"2023-08-23T19:37:39Z","timestamp":1692819459000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-3-319-58943-5_40"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017]]},"ISBN":["9783319589428","9783319589435"],"references-count":19,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-58943-5_40","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2017]]},"assertion":[{"value":"28 May 2017","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}},{"value":"Euro-Par","order":1,"name":"conference_acronym","label":"Conference Acronym","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"European Conference on Parallel Processing","order":2,"name":"conference_name","label":"Conference Name","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Grenoble","order":3,"name":"conference_city","label":"Conference City","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"France","order":4,"name":"conference_country","label":"Conference Country","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2016","order":5,"name":"conference_year","label":"Conference Year","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"24 August 2016","order":7,"name":"conference_start_date","label":"Conference Start Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"26 August 2016","order":8,"name":"conference_end_date","label":"Conference End Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"22","order":9,"name":"conference_number","label":"Conference Number","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"europar2016","order":10,"name":"conference_id","label":"Conference ID","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"https:\/\/europar2016.inria.fr\/","order":11,"name":"conference_url","label":"Conference URL","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"This content has been made available to all.","name":"free","label":"Free to read"}]}}