{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,21]],"date-time":"2025-02-21T10:52:03Z","timestamp":1740135123435,"version":"3.37.3"},"reference-count":10,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2018,12,1]],"date-time":"2018-12-01T00:00:00Z","timestamp":1543622400000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003708","name":"Korea Institute of Science and Technology Information","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003708","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2018,12]]},"DOI":"10.1186\/s12859-018-2559-6","type":"journal-article","created":{"date-parts":[[2018,12,12]],"date-time":"2018-12-12T15:03:48Z","timestamp":1544627028000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Accelerating a cross-correlation score function to search modifications using a single GPU"],"prefix":"10.1186","volume":"19","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6785-7760","authenticated-orcid":false,"given":"Hyunwoo","family":"Kim","sequence":"first","affiliation":[]},{"given":"Sunggeun","family":"Han","sequence":"additional","affiliation":[]},{"given":"Jung-Ho","family":"Um","sequence":"additional","affiliation":[]},{"given":"Kyongseok","family":"Park","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2018,12,12]]},"reference":[{"issue":"9","key":"2559_CR1","doi-asserted-by":"publisher","first-page":"699","DOI":"10.1038\/nrm1468","volume":"5","author":"H Steen","year":"2004","unstructured":"Steen H, Matthias M. The ABC's (and XYZ's) of peptide sequencing. Nat Rev Mol Cell Biol. 2004;5(9):699\u2013711.","journal-title":"Nat Rev Mol Cell Biol"},{"issue":"11","key":"2559_CR2","doi-asserted-by":"publisher","first-page":"976","DOI":"10.1016\/1044-0305(94)80016-2","volume":"5","author":"JK Eng","year":"1994","unstructured":"Eng JK, Ashley LM, John RY. An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database. J Am Soc Mass Spectrom. 1994;5(11):976\u201389.","journal-title":"J Am Soc Mass Spectrom"},{"issue":"24","key":"2559_CR3","doi-asserted-by":"crossref","first-page":"4026","DOI":"10.1093\/bioinformatics\/btv490","volume":"31","author":"H Kim","year":"2015","unstructured":"Kim H, Jo H, Park H, Paek E. HiXCorr: a portable high-speed XCorr engine for high-resolution tandem mass spectrometry. Bioinformatics. 2015;31(24):4026\u20138.","journal-title":"Bioinformatics"},{"issue":"9","key":"2559_CR4","doi-asserted-by":"publisher","first-page":"3871","DOI":"10.1021\/pr101196n","volume":"10","author":"BJ Diament","year":"2011","unstructured":"Diament BJ, Noble WS. Faster SEQUEST searching for peptide identification from tandem mass spectra. J Proteome Res. 2011;10(9):3871\u20139.","journal-title":"J Proteome Res"},{"issue":"1","key":"2559_CR5","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1002\/pmic.201200439","volume":"13","author":"JK Eng","year":"2015","unstructured":"Eng JK, Jahan TA, Comet HMR. An open-source MS\/MS sequence database search tool. Proteomics. 2015;13(1):22\u20134.","journal-title":"Proteomics"},{"issue":"7","key":"2559_CR6","doi-asserted-by":"publisher","first-page":"3581","DOI":"10.1021\/pr300338p","volume":"11","author":"JA Milloy","year":"2012","unstructured":"Milloy JA, Faherty BK, Gerber SA. Tempest: GPU-CPU computing for high-throughput database spectral matching. J Proteome Res. 2012;11(7):3581\u201391.","journal-title":"J Proteome Res"},{"issue":"6","key":"2559_CR7","doi-asserted-by":"publisher","first-page":"2882","DOI":"10.1021\/pr200074h","volume":"10","author":"LA Baumgardner","year":"2011","unstructured":"Baumgardner LA, Shanmugam AK, Lam H, Eng JK, Martin DB. Fast parallel tandem mass spectral library searching using GPU hardware acceleration. J Proteome Res. 2011;10(6):2882\u20138.","journal-title":"J Proteome Res"},{"issue":"8","key":"2559_CR8","doi-asserted-by":"publisher","first-page":"1700386","DOI":"10.1002\/pmic.201700386","volume":"18","author":"SE Lee","year":"2018","unstructured":"Lee SE, Song J, B\u00f6sl K, M\u00fcller AC, Vitko D, Bennett KL, Superti-Furga G, Pandey A, Kandasamy RK, Kim MS. Proteogenomic analysis to identify missing proteins from haploid cell lines. Proteomics. 2018;18(8):1700386.","journal-title":"Proteomics"},{"issue":"10","key":"2559_CR9","doi-asserted-by":"publisher","first-page":"4488","DOI":"10.1021\/pr500741y","volume":"13","author":"S McIlwain","year":"2014","unstructured":"McIlwain S, Tamura K, Kertesz-Farkas A, Grant CE, Diament B, Frewen B, Howbert JJ, Hoopmann MR, kall L, Eng JK, MacCoss MJ, Noble WS. Crux: rapid open source protein tandem mass spectrometry analysis. J Proteome Res. 2014;13(10):4488\u201391.","journal-title":"J Proteome Res"},{"issue":"7","key":"2559_CR10","doi-asserted-by":"publisher","first-page":"743","DOI":"10.1038\/nbt.3267","volume":"33","author":"JM Chick","year":"2015","unstructured":"Chick JM, Kolippakkam D, Nusinow DP, Zhai B, Rad R, Huttlin EL, Gygi SP. A mass-tolerant database search identifies a large proportion of unassigned spectra in shotgun proteomics as modified peptides. Nat Biotechnol. 2015;33(7):743\u20139.","journal-title":"Nat Biotechnol"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-018-2559-6.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12859-018-2559-6\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-018-2559-6.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,9,12]],"date-time":"2023-09-12T02:36:32Z","timestamp":1694486192000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-018-2559-6"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,12]]},"references-count":10,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2018,12]]}},"alternative-id":["2559"],"URL":"https:\/\/doi.org\/10.1186\/s12859-018-2559-6","relation":{},"ISSN":["1471-2105"],"issn-type":[{"type":"electronic","value":"1471-2105"}],"subject":[],"published":{"date-parts":[[2018,12]]},"assertion":[{"value":"28 February 2018","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"4 December 2018","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"12 December 2018","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not applicable.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"The author declare that they have no competing interests.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Publisher\u2019s Note"}}],"article-number":"480"}}