{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,9,10]],"date-time":"2024-09-10T18:38:03Z","timestamp":1725993483203},"reference-count":48,"publisher":"Elsevier","isbn-type":[{"type":"print","value":"9780128114322"}],"license":[{"start":{"date-parts":[[2019,1,1]],"date-time":"2019-01-01T00:00:00Z","timestamp":1546300800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019]]},"DOI":"10.1016\/b978-0-12-809633-8.20411-1","type":"book-chapter","created":{"date-parts":[[2017,12,20]],"date-time":"2017-12-20T23:53:35Z","timestamp":1513814015000},"page":"117-125","source":"Crossref","is-referenced-by-count":0,"title":["Data Storage and Representation"],"prefix":"10.1016","author":[{"given":"Antonella","family":"Guzzo","sequence":"first","affiliation":[]}],"member":"78","reference":[{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib1","doi-asserted-by":"crossref","first-page":"972","DOI":"10.1038\/nbt.2028","article-title":"Harnessing cloud computing with Galaxy Cloud","volume":"29","author":"Afgan","year":"2011","journal-title":"Nat Biotechnol"},{"issue":"2","key":"10.1016\/B978-0-12-809633-8.20411-1_bib2","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1145\/2076450.2076468","article-title":"Software as a service for data scientists","volume":"55","author":"Allen","year":"2012","journal-title":"Communications of the ACM"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib3","doi-asserted-by":"crossref","first-page":"356","DOI":"10.1186\/1471-2105-12-356","article-title":"CloVR: A virtual machine for automated and portable sequence analysis from the desktop using cloud computing","volume":"12","author":"Angiuoli","year":"2011","journal-title":"BMC Bioin-Formatics"},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib4","doi-asserted-by":"crossref","first-page":"242","DOI":"10.1093\/nar\/29.1.242","article-title":"BIND \u2013 The Biomolecular Interaction Network Database","volume":"29","author":"Bader","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib5","doi-asserted-by":"crossref","unstructured":"Bornholt J. et al., 2016. A DNA-Based Archival Storage System ACM - Association for Computing Machinery, April 1.","DOI":"10.1109\/MM.2017.264163456"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib6","doi-asserted-by":"crossref","unstructured":"Bronwen, L., Aken, et al., 2016. The Ensembl gene annotation system Database, http:\/\/doi:10.1093\/database\/baw093.","DOI":"10.1093\/database\/baw093"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib7","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2105-9-532","article-title":"Extended Newick: It is Time for a Standard Representation of Phylogenetic Networks","volume":"9","author":"Cardona","year":"2008","journal-title":"BMC Bioinformatics"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib8","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1186\/1745-6150-7-43","article-title":"Bioinformatics Clouds for Big Data Manipulation","volume":"7","author":"Dai","year":"2012","journal-title":"Biology Direct"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib9","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2105-5-79","article-title":"Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins","volume":"5","author":"Diella","year":"2004","journal-title":"BMC Bioinformatics."},{"issue":"3","key":"10.1016\/B978-0-12-809633-8.20411-1_bib10","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1109\/MIC.2011.64","article-title":"Globus Online: Accelerating and Democratizing Science through Cloud-Based Services","volume":"15","author":"Foster","year":"2011","journal-title":"Internet Computing, IEEE"},{"issue":"11","key":"10.1016\/B978-0-12-809633-8.20411-1_bib11","doi-asserted-by":"crossref","DOI":"10.1186\/gb-2007-8-11-r250","article-title":"PHOSIDA (phosphorylation site database): Management, structural and evolutionary investigation, and prediction of phosphosites","volume":"8","author":"Gnad","year":"2007","journal-title":"Genome Biol."},{"issue":"15","key":"10.1016\/B978-0-12-809633-8.20411-1_bib12","doi-asserted-by":"crossref","first-page":"2466","DOI":"10.1093\/bioinformatics\/bth253","article-title":"HPID: The Human Protein Interaction Database","volume":"20","author":"Han","year":"2004","journal-title":"Bioinformatics."},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib14","doi-asserted-by":"crossref","first-page":"69","DOI":"10.1093\/nar\/27.1.69","article-title":"The Yeast Proteome Database (YPD): A model for the organization and presentation of genome-wide functional data","volume":"27","author":"Hodges","year":"1999","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib15","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2105-8-S6-S8","article-title":"Graphs in molecular biology","volume":"8","author":"Huber","year":"2007","journal-title":"BMC Bioinformatics"},{"issue":"2","key":"10.1016\/B978-0-12-809633-8.20411-1_bib16","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1093\/molbev\/msj030","article-title":"Application of phylogenetic networks in evolutionary studies","volume":"23","author":"Huson","year":"2006","journal-title":"Mol Biol Evol"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib18","doi-asserted-by":"crossref","first-page":"412","DOI":"10.1093\/nar\/gkn760","article-title":"STRING 8 \u2013 A global view on proteins and their functional interactions in 630 organisms","author":"Jensen","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib19","doi-asserted-by":"crossref","first-page":"651","DOI":"10.1038\/35036627","article-title":"The large-scale organization of metabolic networks","volume":"407","author":"Jeong","year":"2000","journal-title":"Nature."},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib20","doi-asserted-by":"crossref","unstructured":"Jourdren, L., Bernard, M., Dillies, M.A., Le Crom, S., 2012. Eoulsan: A cloud computing-based framework facilitating high throughput sequencing analyses. Bioinformatics, 28: 1542-1543.","DOI":"10.1093\/bioinformatics\/bts165"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib21","doi-asserted-by":"crossref","unstructured":"Kanehisa, M., Goto, S., Furumichi, M., Tanabe, M., Hirakawa, M., 2010. KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res. pp. 355\u2013360.","DOI":"10.1093\/nar\/gkp896"},{"issue":"19","key":"10.1016\/B978-0-12-809633-8.20411-1_bib22","doi-asserted-by":"crossref","first-page":"6083","DOI":"10.1093\/nar\/gki892","article-title":"Expansion of the BioCyc collection of pathway\/genome databases to 160 genomes","volume":"33","author":"Karp","year":"2005","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib23","doi-asserted-by":"crossref","first-page":"561","DOI":"10.1093\/nar\/gkl958","article-title":"IntAct\u2013open source resource for molecular interaction data","author":"Kerrien","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib36","unstructured":"Kertesz-Farkas, A., 2008. Protein Classification in a Machine Learning Framework PhD Thesis by Attila Kert esz-Farkas."},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib24","doi-asserted-by":"crossref","first-page":"464","DOI":"10.1093\/nar\/gkn751","article-title":"EcoCyc: A comprehensive view of Escherichia coli biology","author":"Keseler","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib25","doi-asserted-by":"crossref","first-page":"767","DOI":"10.1093\/nar\/gkn892","article-title":"Human Protein Reference Database\u20132009 update","author":"Keshava Prasad","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib26","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1186\/1471-2105-13-42","article-title":"Cloud BioLinux: Pre-configured and on-demand bioin-formatics computing for the genomics community","volume":"13","author":"Krampis","year":"2012","journal-title":"BMC Bioinformatics"},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib27","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1093\/nar\/gkg089","article-title":"TRANSPATH: An integrated database on signal transduction and a tool for array analysis","volume":"31","author":"Krull","year":"2003","journal-title":"Nucleic Acids Res."},{"issue":"6","key":"10.1016\/B978-0-12-809633-8.20411-1_bib28","doi-asserted-by":"crossref","first-page":"1085","DOI":"10.1101\/gr.1910904","article-title":"Coexpression analysis of human genes across many microarray data sets","volume":"14","author":"Lee","year":"2014","journal-title":"Genome Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib29","first-page":"42","article-title":"A context-specific network of protein-DNA and protein-protein interactions reveals new regulatory motifs in human B cells","volume":"4532","author":"Lefebvre","year":"2007","journal-title":"Lecture Notes in Bioinformatics (LNCS)"},{"issue":"Database issue","key":"10.1016\/B978-0-12-809633-8.20411-1_bib30","doi-asserted-by":"crossref","first-page":"572","DOI":"10.1093\/nar\/gkj118","article-title":"TreeFam: A curated database of phylogenetic trees of animal gene families","volume":"34","author":"Li","year":"2006","journal-title":"Nucleic Acids Research"},{"issue":"5737","key":"10.1016\/B978-0-12-809633-8.20411-1_bib31","doi-asserted-by":"crossref","first-page":"1078","DOI":"10.1126\/science.1108876","article-title":"Formation of regulatory patterns during signal propagation in a Mammalian cellular network","volume":"309","author":"Ma\u05f3ayan","year":"2005","journal-title":"Science."},{"issue":"135","key":"10.1016\/B978-0-12-809633-8.20411-1_bib32","article-title":"The Edinburgh human metabolic network reconstruction and its functional analysis","volume":"3","author":"Ma","year":"2007","journal-title":"Mol Syst Biol."},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib33","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1093\/nar\/gkh092","article-title":"MIPS: Analysis and annotation of proteins from whole genomes","author":"Mewes","year":"2004","journal-title":"Nucleic Acids Res"},{"issue":"35","key":"10.1016\/B978-0-12-809633-8.20411-1_bib34","doi-asserted-by":"crossref","DOI":"10.1126\/scisignal.1159433","article-title":"Linear motif atlas for phosphorylation-dependent signaling","volume":"1","author":"Miller","year":"2008","journal-title":"Sci Signal"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib17","unstructured":"Murty, J., 2009. Programming Amazon Web Services first ed., Book - O\u05f3Reilly."},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib35","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1186\/1756-0381-4-10","article-title":"Using Graph Theory to Analyze Biological Networks","volume":"4","author":"Pavlopoulos","year":"2011","journal-title":"BioData Mining"},{"issue":"Database issue","key":"10.1016\/B978-0-12-809633-8.20411-1_bib37","doi-asserted-by":"crossref","first-page":"670","DOI":"10.1093\/nar\/gku1177","article-title":"The UCSC Genome Browser database: 2015 update","volume":"43","author":"Rosenbloom","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib38","first-page":"271","article-title":"The RCSB protein data bank: Integrative view of protein, gene and 3D structural information","volume":"45","author":"Rose","year":"2017","journal-title":"Nucleic Acids Research"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib39","doi-asserted-by":"crossref","first-page":"91","DOI":"10.1093\/nar\/gkh012","article-title":"JASPAR: An open-access database for eukaryotic transcription factor binding profiles","volume":"32","author":"Sandelin","year":"2004","journal-title":"Nucleic Acids Res."},{"issue":"4","key":"10.1016\/B978-0-12-809633-8.20411-1_bib40","article-title":"Modern Data Formats for Big Bioinformatics Data Analytics","volume":"8","author":"Shahzad","year":"2017","journal-title":"Int. Journal of Advanced Computer Science and Applications"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib41","doi-asserted-by":"crossref","first-page":"535","DOI":"10.1093\/nar\/gkj109","article-title":"BioGRID: A general repository for interaction datasets","author":"Stark","year":"2006","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib42","doi-asserted-by":"crossref","unstructured":"Roderic, D.M., 2007. TBMap: A taxonomic perspective on the phylogenetic database TreeBASE. BMC Bioinformatics. 8:158.","DOI":"10.1186\/1471-2105-8-158"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib43","doi-asserted-by":"crossref","first-page":"386","DOI":"10.1093\/nar\/gkl932","article-title":"MiST: A microbial signal transduction database","volume":"35","author":"Ulrich","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib44","doi-asserted-by":"crossref","first-page":"531","DOI":"10.1093\/nar\/gkn826","article-title":"metaTIGER: A metabolic evolution resource","author":"Whitaker","year":"2009","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib45","doi-asserted-by":"crossref","first-page":"238","DOI":"10.1093\/nar\/24.1.238","article-title":"TRANSFAC: A database on transcription factors and their DNA binding sites","volume":"24","author":"Wingender","year":"1996","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib46","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1093\/nar\/28.1.289","article-title":"DIP: The database of interacting proteins","volume":"28","author":"Xenarios","year":"2000","journal-title":"Nucleic Acids Res"},{"key":"10.1016\/B978-0-12-809633-8.20411-1_bib47","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1186\/1471-2164-9-461","article-title":"DroID: The Drosophila Interactions Database, a comprehensive resource for annotated gene and protein interactions","volume":"9","author":"Yu","year":"2008","journal-title":"BMC Genomics"},{"issue":"7","key":"10.1016\/B978-0-12-809633-8.20411-1_bib48","article-title":"Big data: Astronomical or genomical","volume":"13","author":"Zachary","year":"2015","journal-title":"PLoS Biol"},{"issue":"1","key":"10.1016\/B978-0-12-809633-8.20411-1_bib49","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1016\/S0014-5793(01)03293-8","article-title":"MINT: A Molecular INTeraction database","volume":"513","author":"Zanzoni","year":"2002","journal-title":"FEBS Lett."}],"container-title":["Encyclopedia of Bioinformatics and Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:B9780128096338204111?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:B9780128096338204111?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2022,8,10]],"date-time":"2022-08-10T23:17:25Z","timestamp":1660173445000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/B9780128096338204111"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019]]},"ISBN":["9780128114322"],"references-count":48,"URL":"https:\/\/doi.org\/10.1016\/b978-0-12-809633-8.20411-1","relation":{},"subject":[],"published":{"date-parts":[[2019]]}}}