{"id":"https://openalex.org/W2406164431","doi":"https://doi.org/10.1007/s00799-016-0174-6","title":"Experiences in integrated data and research object publishing using GigaDB","display_name":"Experiences in integrated data and research object publishing using GigaDB","publication_year":2016,"publication_date":"2016-05-27","ids":{"openalex":"https://openalex.org/W2406164431","doi":"https://doi.org/10.1007/s00799-016-0174-6","mag":"2406164431"},"language":"en","primary_location":{"id":"doi:10.1007/s00799-016-0174-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00799-016-0174-6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs00799-016-0174-6.pdf","source":{"id":"https://openalex.org/S110615584","display_name":"International Journal on Digital Libraries","issn_l":"1432-1300","issn":["1432-1300","1432-5012"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal on Digital Libraries","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007%2Fs00799-016-0174-6.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091565842","display_name":"Scott Edmunds","orcid":"https://orcid.org/0000-0001-6444-1436"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Scott C Edmunds","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":"https://orcid.org/0000-0001-6444-1436","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064435741","display_name":"Peter Li","orcid":"https://orcid.org/0000-0001-9602-9550"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Peter Li","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":"https://orcid.org/0000-0001-9602-9550","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009068138","display_name":"Chris Hunter","orcid":"https://orcid.org/0000-0002-1335-0881"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Christopher I Hunter","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":"https://orcid.org/0000-0002-1335-0881","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":null,"display_name":"Si Zhe Xiao","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Si Zhe Xiao","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082569786","display_name":"Rob Davidson","orcid":"https://orcid.org/0000-0002-0311-9774"},"institutions":[{"id":"https://openalex.org/I1327095140","display_name":"Office for National Statistics","ror":"https://ror.org/021fhft25","country_code":"GB","type":"government","lineage":["https://openalex.org/I1327095140"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Robert L Davidson","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","Office for National Statistics, Duffryn, Government Buildings, Cardiff Rd, Newport, NP10 8XG, UK"],"raw_orcid":"https://orcid.org/0000-0002-0311-9774","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]},{"raw_affiliation_string":"Office for National Statistics, Duffryn, Government Buildings, Cardiff Rd, Newport, NP10 8XG, UK","institution_ids":["https://openalex.org/I1327095140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017105181","display_name":"Nicole Nogoy","orcid":"https://orcid.org/0000-0002-5192-9835"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nicole Nogoy","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":"https://orcid.org/0000-0002-5192-9835","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010268074","display_name":"Laurie Goodman","orcid":"https://orcid.org/0000-0001-9724-5976"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Laurie Goodman","raw_affiliation_strings":["GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China"],"raw_orcid":"https://orcid.org/0000-0001-9724-5976","affiliations":[{"raw_affiliation_string":"GigaScience, BGI-Hong Kong Co, Ltd, 16 Dai Fu Street, Tai Po Industrial Estate, NT, Hong Kong SAR, China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5091565842"],"corresponding_institution_ids":[],"apc_list":{"value":2290,"currency":"EUR","value_usd":2890},"apc_paid":{"value":2290,"currency":"EUR","value_usd":2890},"fwci":9.4309,"has_fulltext":true,"cited_by_count":20,"citation_normalized_percentile":{"value":0.97396952,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"18","issue":"2","first_page":"99","last_page":"111"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11937","display_name":"Research Data Management Practices","score":0.989799976348877,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8009581565856934},{"id":"https://openalex.org/keywords/publishing","display_name":"Publishing","score":0.5826202034950256},{"id":"https://openalex.org/keywords/object","display_name":"Object (grammar)","score":0.5307393670082092},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.5019857883453369},{"id":"https://openalex.org/keywords/data-publishing","display_name":"Data publishing","score":0.49270060658454895},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4711911678314209},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.39054691791534424},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.10324430465698242}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8009581565856934},{"id":"https://openalex.org/C151719136","wikidata":"https://www.wikidata.org/wiki/Q3972943","display_name":"Publishing","level":2,"score":0.5826202034950256},{"id":"https://openalex.org/C2781238097","wikidata":"https://www.wikidata.org/wiki/Q175026","display_name":"Object (grammar)","level":2,"score":0.5307393670082092},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5019857883453369},{"id":"https://openalex.org/C2781396290","wikidata":"https://www.wikidata.org/wiki/Q17051824","display_name":"Data publishing","level":3,"score":0.49270060658454895},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4711911678314209},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.39054691791534424},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.10324430465698242},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/s00799-016-0174-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00799-016-0174-6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs00799-016-0174-6.pdf","source":{"id":"https://openalex.org/S110615584","display_name":"International Journal on Digital Libraries","issn_l":"1432-1300","issn":["1432-1300","1432-5012"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal on Digital Libraries","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1007/s00799-016-0174-6","is_oa":true,"landing_page_url":"https://doi.org/10.1007/s00799-016-0174-6","pdf_url":"https://link.springer.com/content/pdf/10.1007%2Fs00799-016-0174-6.pdf","source":{"id":"https://openalex.org/S110615584","display_name":"International Journal on Digital Libraries","issn_l":"1432-1300","issn":["1432-1300","1432-5012"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal on Digital Libraries","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.49000000953674316,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"},{"id":"https://openalex.org/F4320334631","display_name":"Natural Environment Research Council","ror":"https://ror.org/02b5d8509"},{"id":"https://openalex.org/F4320334792","display_name":"Beijing Institute of Genomics, Chinese Academy of Sciences","ror":"https://ror.org/049gn7z52"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2406164431.pdf","grobid_xml":"https://content.openalex.org/works/W2406164431.grobid-xml"},"referenced_works_count":93,"referenced_works":["https://openalex.org/W585341442","https://openalex.org/W1481678804","https://openalex.org/W1482374180","https://openalex.org/W1595114968","https://openalex.org/W1923239557","https://openalex.org/W1968793311","https://openalex.org/W1978954664","https://openalex.org/W1987777080","https://openalex.org/W2008985174","https://openalex.org/W2011269116","https://openalex.org/W2011993186","https://openalex.org/W2022369034","https://openalex.org/W2022406334","https://openalex.org/W2026536242","https://openalex.org/W2026861756","https://openalex.org/W2031655969","https://openalex.org/W2031739072","https://openalex.org/W2031934506","https://openalex.org/W2038028366","https://openalex.org/W2039478628","https://openalex.org/W2045657963","https://openalex.org/W2047864778","https://openalex.org/W2054496673","https://openalex.org/W2056604833","https://openalex.org/W2062431588","https://openalex.org/W2062533068","https://openalex.org/W2063999658","https://openalex.org/W2077181076","https://openalex.org/W2097888424","https://openalex.org/W2099428625","https://openalex.org/W2108682145","https://openalex.org/W2109639235","https://openalex.org/W2109846272","https://openalex.org/W2115728162","https://openalex.org/W2117363952","https://openalex.org/W2118482224","https://openalex.org/W2120260249","https://openalex.org/W2120799151","https://openalex.org/W2121907019","https://openalex.org/W2128105693","https://openalex.org/W2128147696","https://openalex.org/W2129747243","https://openalex.org/W2129933858","https://openalex.org/W2135667536","https://openalex.org/W2136482257","https://openalex.org/W2140315639","https://openalex.org/W2141297584","https://openalex.org/W2142898494","https://openalex.org/W2145396703","https://openalex.org/W2146902212","https://openalex.org/W2148561248","https://openalex.org/W2149623391","https://openalex.org/W2150991111","https://openalex.org/W2156498700","https://openalex.org/W2164299185","https://openalex.org/W2167107931","https://openalex.org/W2168430718","https://openalex.org/W2170057885","https://openalex.org/W2170679524","https://openalex.org/W2177137429","https://openalex.org/W2202604356","https://openalex.org/W2259815689","https://openalex.org/W2272010394","https://openalex.org/W2296610545","https://openalex.org/W2302501749","https://openalex.org/W2333743338","https://openalex.org/W2595852777","https://openalex.org/W2773787581","https://openalex.org/W2793466413","https://openalex.org/W2946613399","https://openalex.org/W3203185984","https://openalex.org/W4236248415","https://openalex.org/W4250273625","https://openalex.org/W4386181801","https://openalex.org/W4394279021","https://openalex.org/W6664527146","https://openalex.org/W6894189389","https://openalex.org/W6894280741","https://openalex.org/W6894400586","https://openalex.org/W6912949217","https://openalex.org/W6912984928","https://openalex.org/W6912992160","https://openalex.org/W6913015437","https://openalex.org/W6913016141","https://openalex.org/W6913149950","https://openalex.org/W6913201861","https://openalex.org/W6913273646","https://openalex.org/W6931984796","https://openalex.org/W6950551753","https://openalex.org/W6950599601","https://openalex.org/W6950659769","https://openalex.org/W6950702413","https://openalex.org/W6950704352"],"related_works":["https://openalex.org/W2294677930","https://openalex.org/W2801905285","https://openalex.org/W2028846973","https://openalex.org/W2698935035","https://openalex.org/W2756635080","https://openalex.org/W249766449","https://openalex.org/W1504443673","https://openalex.org/W2230419033","https://openalex.org/W2086821603","https://openalex.org/W2354149895"],"abstract_inverted_index":{"In":[0],"the":[1,66,93,98,127,167,209],"era":[2],"of":[3,10,34,45,92,97],"computation":[4],"and":[5,23,88,117,123,130,141,148,152,166,180,189,194,203,227],"data-driven":[6],"research,":[7],"traditional":[8],"methods":[9,22,131],"disseminating":[11,20],"research":[12,173,211],"are":[13,25,59,132],"no":[14],"longer":[15],"fit-for-purpose.":[16],"New":[17],"approaches":[18],"for":[19,41,54],"data,":[21,116],"results":[24],"required":[26],"to":[27,64,81,135,160],"maximize":[28],"knowledge":[29],"discovery.":[30],"The":[31],"\u201clong":[32],"tail\u201d":[33],"small,":[35],"unstructured":[36],"datasets":[37,151],"is":[38,75],"well":[39],"catered":[40],"by":[42,230],"a":[43,215,240],"number":[44],"general-purpose":[46],"repositories,":[47],"but":[48],"there":[49],"has":[50,144],"been":[51,187],"less":[52],"support":[53],"\u201cbig":[55],"data\u201d.":[56],"Outlined":[57],"here":[58],"our":[60],"experiences":[61],"in":[62,68,191,208,239],"attempting":[63],"tackle":[65,161],"gaps":[67],"publishing":[69],"large-scale,":[70],"computationally":[71],"intensive":[72],"research.":[73],"GigaScience":[74,102,184,213],"an":[76,108],"open-access,":[77],"open-data":[78],"journal":[79],"aiming":[80],"revolutionize":[82],"large-scale":[83],"biological":[84],"data":[85,94,120,153,159,198,222],"dissemination,":[86],"organization":[87],"re-use.":[89],"Through":[90],"use":[91,207],"handling":[95],"infrastructure":[96,238],"genomics":[99],"centre":[100],"BGI,":[101],"links":[103],"standard":[104],"manuscript":[105],"publication":[106],"with":[107],"integrated":[109,134],"database":[110],"(GigaDB)":[111],"that":[112],"hosts":[113],"all":[114],"associated":[115],"provides":[118],"additional":[119],"analysis":[121],"tools":[122],"computing":[124],"resources.":[125],"Furthermore,":[126],"supporting":[128],"workflows":[129],"also":[133],"make":[136],"published":[137],"articles":[138,185],"more":[139,218,241],"transparent":[140,193],"open.":[142],"GigaDB":[143],"released":[145],"many":[146],"new":[147],"previously":[149],"unpublished":[150],"types,":[154],"including":[155],"as":[156,176],"urgently":[157],"needed":[158],"infectious":[162],"disease":[163],"outbreaks,":[164],"cancer":[165],"growing":[168],"food":[169],"crisis.":[170],"Other":[171],"\u201cexecutable\u201d":[172],"objects,":[174],"such":[175],"workflows,":[177],"virtual":[178],"machines":[179],"software":[181],"from":[182],"several":[183],"have":[186],"archived":[188],"shared":[190],"reproducible,":[192],"usable":[195],"formats.":[196],"With":[197],"citation":[199],"producing":[200],"evidence":[201],"of,":[202],"credit":[204],"for,":[205],"its":[206],"wider":[210],"community,":[212],"demonstrates":[214],"move":[216],"towards":[217],"executable":[219],"publications.":[220],"Here":[221],"analyses":[223],"can":[224],"be":[225],"reproduced":[226],"built":[228],"upon":[229],"users":[231],"without":[232],"coding":[233],"backgrounds":[234],"or":[235],"heavy":[236],"computational":[237],"democratized":[242],"manner.":[243]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":6}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
