{"id":"https://openalex.org/W2735261832","doi":"https://doi.org/10.1016/j.procs.2017.06.115","title":"Efficient data structures for mobile de novo genome assembly by third-generation sequencing","display_name":"Efficient data structures for mobile de novo genome assembly by third-generation sequencing","publication_year":2017,"publication_date":"2017-01-01","ids":{"openalex":"https://openalex.org/W2735261832","doi":"https://doi.org/10.1016/j.procs.2017.06.115","mag":"2735261832"},"language":"en","primary_location":{"id":"doi:10.1016/j.procs.2017.06.115","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.procs.2017.06.115","pdf_url":null,"source":{"id":"https://openalex.org/S120348307","display_name":"Procedia Computer Science","issn_l":"1877-0509","issn":["1877-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Procedia Computer Science","raw_type":"journal-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://doi.org/10.1016/j.procs.2017.06.115","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017152835","display_name":"Franco Milicchio","orcid":"https://orcid.org/0000-0002-4875-4894"},"institutions":[{"id":"https://openalex.org/I119003972","display_name":"Roma Tre University","ror":"https://ror.org/05vf0dg29","country_code":"IT","type":"education","lineage":["https://openalex.org/I119003972"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Franco Milicchio","raw_affiliation_strings":["Department of Engineering, Section of Informatics & Automation, Roma Tre University, Rome, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Engineering, Section of Informatics & Automation, Roma Tre University, Rome, Italy","institution_ids":["https://openalex.org/I119003972"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5039419132","display_name":"Mattia Prosperi","orcid":"https://orcid.org/0000-0002-9021-5595"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]},{"id":"https://openalex.org/I94062374","display_name":"Florida College","ror":"https://ror.org/010bgev76","country_code":"US","type":"education","lineage":["https://openalex.org/I94062374"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mattia Prosperi","raw_affiliation_strings":["Department of Epidemiology, College of Public Health and Health Professions, College of Medicine, University of Florida, Gainesville, Florida, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Epidemiology, College of Public Health and Health Professions, College of Medicine, University of Florida, Gainesville, Florida, USA","institution_ids":["https://openalex.org/I33213144","https://openalex.org/I94062374"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5039419132"],"corresponding_institution_ids":["https://openalex.org/I33213144","https://openalex.org/I94062374"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"110","issue":null,"first_page":"440","last_page":"447"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9955999851226807,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9900000095367432,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11407","display_name":"Innovative Microfluidic and Catalytic Techniques Innovation","score":0.9861000180244446,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8772724270820618},{"id":"https://openalex.org/keywords/minion","display_name":"Minion","score":0.8048495054244995},{"id":"https://openalex.org/keywords/software-portability","display_name":"Software portability","score":0.7842245101928711},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.6686522960662842},{"id":"https://openalex.org/keywords/nanopore-sequencing","display_name":"Nanopore sequencing","score":0.6090046763420105},{"id":"https://openalex.org/keywords/hybrid-genome-assembly","display_name":"Hybrid genome assembly","score":0.5345448851585388},{"id":"https://openalex.org/keywords/mobile-device","display_name":"Mobile device","score":0.45574095845222473},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.45229920744895935},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.41222187876701355},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.3609046936035156},{"id":"https://openalex.org/keywords/reference-genome","display_name":"Reference genome","score":0.29557451605796814},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.18693357706069946}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8772724270820618},{"id":"https://openalex.org/C2779927696","wikidata":"https://www.wikidata.org/wiki/Q6865654","display_name":"Minion","level":5,"score":0.8048495054244995},{"id":"https://openalex.org/C63000827","wikidata":"https://www.wikidata.org/wiki/Q3080428","display_name":"Software portability","level":2,"score":0.7842245101928711},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.6686522960662842},{"id":"https://openalex.org/C126513998","wikidata":"https://www.wikidata.org/wiki/Q8973627","display_name":"Nanopore sequencing","level":4,"score":0.6090046763420105},{"id":"https://openalex.org/C113425843","wikidata":"https://www.wikidata.org/wiki/Q5953213","display_name":"Hybrid genome assembly","level":5,"score":0.5345448851585388},{"id":"https://openalex.org/C186967261","wikidata":"https://www.wikidata.org/wiki/Q5082128","display_name":"Mobile device","level":2,"score":0.45574095845222473},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.45229920744895935},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.41222187876701355},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.3609046936035156},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.29557451605796814},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.18693357706069946},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1016/j.procs.2017.06.115","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.procs.2017.06.115","pdf_url":null,"source":{"id":"https://openalex.org/S120348307","display_name":"Procedia Computer Science","issn_l":"1877-0509","issn":["1877-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Procedia Computer Science","raw_type":"journal-article"},{"id":"pmh:oai:zenodo.org:38636","is_oa":true,"landing_page_url":"https://www.openaccessrepository.it/record/38636","pdf_url":"https://zenodo.org/record/38636","source":{"id":"https://openalex.org/S4306402478","display_name":"INFM-OAR (INFN Catania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210116497","host_organization_name":"Istituto Nazionale di Fisica Nucleare, Sezione di Catania","host_organization_lineage":["https://openalex.org/I4210116497"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1016/j.procs.2017.06.115","is_oa":true,"landing_page_url":"https://doi.org/10.1016/j.procs.2017.06.115","pdf_url":null,"source":{"id":"https://openalex.org/S120348307","display_name":"Procedia Computer Science","issn_l":"1877-0509","issn":["1877-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Procedia Computer Science","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4099999964237213}],"awards":[{"id":"https://openalex.org/G8778799187","display_name":"Virus discovery and epidemic tracing from high throughput metagenomic sequencing","funder_award_id":"634650","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W1539969033","https://openalex.org/W1843776586","https://openalex.org/W1953000621","https://openalex.org/W1980606681","https://openalex.org/W2046113363","https://openalex.org/W2047168584","https://openalex.org/W2053392780","https://openalex.org/W2063354603","https://openalex.org/W2075996757","https://openalex.org/W2082825869","https://openalex.org/W2087064593","https://openalex.org/W2092167436","https://openalex.org/W2097160089","https://openalex.org/W2108058966","https://openalex.org/W2132108235","https://openalex.org/W2140466960","https://openalex.org/W2141040548","https://openalex.org/W2151017710","https://openalex.org/W2163584430","https://openalex.org/W2194172909","https://openalex.org/W2303656007","https://openalex.org/W2344352022","https://openalex.org/W2498287879","https://openalex.org/W2521004200","https://openalex.org/W2550586733","https://openalex.org/W2558375134","https://openalex.org/W2564448515","https://openalex.org/W2598785105","https://openalex.org/W2950354111","https://openalex.org/W4232079358","https://openalex.org/W6662090415"],"related_works":["https://openalex.org/W3021840362","https://openalex.org/W3009176350","https://openalex.org/W2521004200","https://openalex.org/W2189047836","https://openalex.org/W2952788979","https://openalex.org/W2899138449","https://openalex.org/W2607669908","https://openalex.org/W2614829881","https://openalex.org/W2530026693","https://openalex.org/W2521280993"],"abstract_inverted_index":{"Mobile/portable":[0],"(third-generation)":[1],"sequencing":[2],"technologies,":[3],"including":[4],"Oxford":[5],"Nanopore\u2019s":[6],"MinION":[7],"and":[8,48,71,133],"SmidgION,":[9],"are":[10,64],"revolutionizing":[11],"once":[12],"again":[13],"\u2013after":[14],"the":[15,43,60,77,82,141,157,163],"advent":[16],"of":[17,33,45,111,143,159],"high-throughput":[18],"sequencing\u2013":[19],"biomedical":[20],"sciences.":[21],"They":[22],"combine":[23],"an":[24,67,125],"increase":[25],"in":[26,86],"sequence":[27,118],"length":[28,122],"(up":[29],"to":[30,58,66,103],"hundred":[31],"thousands":[32],"bases)":[34],"with":[35,92,124,150],"extreme":[36],"portability.":[37],"While":[38],"a":[39,46,51,55,136,168],"sequencer":[40],"now":[41],"fits":[42],"palm":[44],"hand":[47],"needs":[49],"only":[50],"USB":[52],"outlet":[53],"or":[54,89],"mobile":[56,137],"phone/tablet":[57],"work,":[59,97],"data":[61,101,107,161],"analysis":[62],"phases":[63],"bound":[65],"available":[68],"Internet":[69,164],"connection":[70],"cloud":[72],"computing.":[73],"This":[74],"somehow":[75],"hampers":[76],"portability":[78],"paradigm,":[79],"especially":[80],"if":[81],"technology":[83],"is":[84],"used":[85],"resource-limited":[87],"settings":[88],"remote":[90],"areas":[91],"limited":[93],"connectivity.":[94],"In":[95],"this":[96],"we":[98,115],"introduce":[99],"efficient":[100],"structures":[102],"effectively":[104],"enable":[105],"portable":[106],"analytics":[108],"by":[109],"means":[110],"third-generation":[112],"sequencing.":[113],"Specifically,":[114],"show":[116],"how":[117],"overlap":[119],"graphs":[120],"(fixed":[121],"k-mers,":[123],"extension":[126],"on":[127,135,167],"variable":[128],"lengths)":[129],"can":[130],"be":[131],"built":[132],"stored":[134],"phone,":[138],"thereby":[139],"allowing":[140],"execution":[142,166],"de":[144],"novo":[145],"genome":[146],"assembly":[147],"algorithms":[148],"(along":[149],"ad-hoc":[151],"strategies":[152],"for":[153],"error":[154],"correction)":[155],"without":[156],"need":[158],"transfer":[160],"over":[162],"nor":[165],"desktop.":[169]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}