{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,9,10]],"date-time":"2024-09-10T15:42:59Z","timestamp":1725982979243},"publisher-location":"Cham","reference-count":30,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319948089"},{"type":"electronic","value":"9783319948096"}],"license":[{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018]]},"DOI":"10.1007\/978-3-319-94809-6_10","type":"book-chapter","created":{"date-parts":[[2018,6,29]],"date-time":"2018-06-29T09:32:41Z","timestamp":1530264761000},"page":"197-212","update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Experiences in the Development of a\u00a0Data Management System\u00a0for Genomics"],"prefix":"10.1007","author":[{"given":"Stefano","family":"Ceri","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Arif","family":"Canakoglu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Abdulrahman","family":"Kaitoua","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marco","family":"Masseroli","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pietro","family":"Pinoli","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2018,6,30]]},"reference":[{"key":"10_CR1","doi-asserted-by":"crossref","unstructured":"1000 Genomes Consortium: An integrated map of genetic variation from 1,092 human genomes. Nature 491, 56\u201365 (2012)","DOI":"10.1038\/nature11632"},{"issue":"W1","key":"10_CR2","doi-asserted-by":"publisher","first-page":"W581","DOI":"10.1093\/nar\/gkw211","volume":"44","author":"F Albrecht","year":"2016","unstructured":"Albrecht, F., et al.: DeepBlue epigenomic data server: programmatic data retrieval and analysis of the epigenome. Nucleid Acids Res. 44(W1), W581\u2013586 (2016)","journal-title":"Nucleid Acids Res."},{"key":"10_CR3","unstructured":"Anonymous paper, Accelerating bioinformatics research with new software for big data to knowledge (BD2K), Paradigm4 Inc. (2015). http:\/\/www.paradigm4.com\/"},{"key":"10_CR4","unstructured":"Apache Flink. http:\/\/flink.apache.org\/"},{"key":"10_CR5","unstructured":"Apache Lucene. http:\/\/lucene.apache.org\/core\/"},{"key":"10_CR6","unstructured":"Apache Pig. http:\/\/pig.apache.org\/"},{"key":"10_CR7","unstructured":"Apache Spark. http:\/\/spark.apache.org\/"},{"key":"10_CR8","series-title":"Lecture Notes in Computer Science","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1007\/978-3-319-69904-2_26","volume-title":"Conceptual Modeling","author":"A Bernasconi","year":"2017","unstructured":"Bernasconi, A., Ceri, S., Campi, A., Masseroli, M.: Conceptual modeling for genomics: building an integrated repository of open data. In: Mayr, H.C., Guizzardi, G., Ma, H., Pastor, O. (eds.) ER 2017. LNCS, vol. 10650, pp. 325\u2013339. Springer, Cham (2017). https:\/\/doi.org\/10.1007\/978-3-319-69904-2_26"},{"key":"10_CR9","doi-asserted-by":"crossref","unstructured":"Bertoni, M., et al.: Evaluating cloud frameworks on genomic applications. In: Proceedings of IEEE Conference on Big Data Management, Santa Clara, CA (2015)","DOI":"10.1109\/BigData.2015.7363756"},{"key":"10_CR10","doi-asserted-by":"crossref","unstructured":"Cattani, S., et al.: Evaluating big data genomic applications on SciDB and Spark. In: Proceedings of Web Engineering Conference, Rome, IT (2017)","DOI":"10.1007\/978-3-319-60131-1_34"},{"issue":"6","key":"10_CR11","doi-asserted-by":"publisher","first-page":"1251","DOI":"10.1109\/TCBB.2016.2576447","volume":"14","author":"S Ceri","year":"2016","unstructured":"Ceri, S., et al.: Data management for heterogeneous genomic datasets. IEEE\/ACM Trans. Comput. Biol. Bioinform. 14(6), 1251\u20131264 (2016)","journal-title":"IEEE\/ACM Trans. Comput. Biol. Bioinform."},{"issue":"6","key":"10_CR12","first-page":"1","volume":"18","author":"F Cumbo","year":"2017","unstructured":"Cumbo, F., et al.: TCGA2BED: extracting, extending, integrating, and querying The Cancer Genome Atlas. BMC Bioinform. 18(6), 1\u20139 (2017)","journal-title":"BMC Bioinform."},{"key":"10_CR13","unstructured":"Chawda, B., et al.: Processing interval joins on Map-Reduce. In: Proceedings of EDBT, pp. 463\u2013474 (2014)"},{"key":"10_CR14","doi-asserted-by":"crossref","unstructured":"ENCODE Project Consortium: An integrated encyclopedia of DNA elements in the human genome. Nature 489(7414), 57\u201374 (2012)","DOI":"10.1038\/nature11247"},{"key":"10_CR15","unstructured":"Hadoop 2. http:\/\/hadoop.apache.org\/docs\/stable\/"},{"key":"10_CR16","doi-asserted-by":"publisher","first-page":"536","DOI":"10.1186\/s12859-017-1945-9","volume":"18","author":"V Jalili","year":"2017","unstructured":"Jalili, V., et al.: Explorative visual analytics on interval-based genomic data and their metadata. BMC Bioinform. 18, 536 (2017)","journal-title":"BMC Bioinform."},{"key":"10_CR17","doi-asserted-by":"publisher","unstructured":"Kaitoua, A., et al.: Framework for supporting genomic operations. IEEE-TC (2016). https:\/\/doi.org\/10.1109\/TC.2016.2603980","DOI":"10.1109\/TC.2016.2603980"},{"issue":"6","key":"10_CR18","doi-asserted-by":"publisher","first-page":"996","DOI":"10.1101\/gr.229102","volume":"12","author":"WJ Kent","year":"2002","unstructured":"Kent, W.J.: The human genome browser at UCSC. Genome Res. 12(6), 996\u20131006 (2002)","journal-title":"Genome Res."},{"issue":"12","key":"10_CR19","doi-asserted-by":"publisher","first-page":"1881","DOI":"10.1093\/bioinformatics\/btv048","volume":"31","author":"M Masseroli","year":"2015","unstructured":"Masseroli, M., et al.: GenoMetric Query Language: a novel approach to large-scale genomic data management. Bioinformatics 31(12), 1881\u20131888 (2015)","journal-title":"Bioinformatics"},{"key":"10_CR20","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1016\/j.ymeth.2016.09.002","volume":"111","author":"M Masseroli","year":"2016","unstructured":"Masseroli, M., et al.: Modeling and interoperability of heterogeneous genomic big data for integrative processing and querying. Methods 111, 3\u201311 (2016)","journal-title":"Methods"},{"key":"10_CR21","doi-asserted-by":"crossref","unstructured":"Olston, C., et al.: Pig Latin: a not-so-foreign language for data processing. In: ACM-SIGMOD, pp. 1099\u20131110 (2008)","DOI":"10.1145\/1376616.1376726"},{"key":"10_CR22","doi-asserted-by":"crossref","unstructured":"Roy, A., et al.: Massively parallel processing of whole genome sequence data: an in-depth performance study. In: ACM Sigmod, Boston, MA (2017)","DOI":"10.1145\/3035918.3064048"},{"issue":"1","key":"10_CR23","doi-asserted-by":"publisher","first-page":"16","DOI":"10.1038\/nmeth1156","volume":"5","author":"SC Schuster","year":"2008","unstructured":"Schuster, S.C.: Next-generation sequencing transforms today\u2019s biology. Nat. Methods 5(1), 16\u201318 (2008)","journal-title":"Nat. Methods"},{"key":"10_CR24","unstructured":"SciDB. http:\/\/www.scidb.org\/"},{"key":"10_CR25","doi-asserted-by":"crossref","unstructured":"Shvachko, K., et al.: The Hadoop distributed file system. In: Proceedings of MSST, pp. 1\u201310 (2010)","DOI":"10.1109\/MSST.2010.5496972"},{"issue":"7","key":"10_CR26","doi-asserted-by":"publisher","first-page":"e1002195","DOI":"10.1371\/journal.pbio.1002195","volume":"13","author":"ZD Stephens","year":"2015","unstructured":"Stephens, Z.D., et al.: Big data: astronomical or genomical? PLoS Biol. 13(7), e1002195 (2015)","journal-title":"PLoS Biol."},{"issue":"Suppl. 12","key":"10_CR27","doi-asserted-by":"publisher","first-page":"S1","DOI":"10.1186\/1471-2105-11-S12-S1","volume":"11","author":"RC Taylor","year":"2010","unstructured":"Taylor, R.C., et al.: An overview of the Hadoop MapReduce HBase framework and its current applications in bioinformatics. BMC Bioinform. 11(Suppl. 12), S1 (2010)","journal-title":"BMC Bioinform."},{"issue":"10","key":"10_CR28","doi-asserted-by":"publisher","first-page":"1113","DOI":"10.1038\/ng.2764","volume":"45","author":"JN Weinstein","year":"2013","unstructured":"Weinstein, J.N., et al.: The Cancer Genome Atlas Pan-Cancer analysis project. Nat. Genet. 45(10), 1113\u20131120 (2013)","journal-title":"Nat. Genet."},{"key":"10_CR29","unstructured":"Zaharia, M., et al.: Resilient distributed datasets: a fault-tolerant abstraction for in-memory cluster computing. In: Proceedings of USENIX, pp. 15\u201328 (2012)"},{"issue":"4","key":"10_CR30","doi-asserted-by":"publisher","first-page":"453","DOI":"10.1182\/blood-2017-03-735654","volume":"130","author":"MA Jensen","year":"2017","unstructured":"Jensen, M.A., et al.: The NCI Genomic Data Commons as an engine for precision medicine. Blood 130(4), 453\u2013459 (2017)","journal-title":"Blood"}],"container-title":["Communications in Computer and Information Science","Data Management Technologies and Applications"],"original-title":[],"link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-94809-6_10","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,10,20]],"date-time":"2019-10-20T01:08:20Z","timestamp":1571533700000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-319-94809-6_10"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018]]},"ISBN":["9783319948089","9783319948096"],"references-count":30,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-94809-6_10","relation":{},"ISSN":["1865-0929","1865-0937"],"issn-type":[{"type":"print","value":"1865-0929"},{"type":"electronic","value":"1865-0937"}],"subject":[],"published":{"date-parts":[[2018]]}}}