{"id":"https://openalex.org/W3025792028","doi":"https://doi.org/10.3233/sw-200374","title":"Findable and reusable workflow data products: A genomic workflow case study","display_name":"Findable and reusable workflow data products: A genomic workflow case study","publication_year":2020,"publication_date":"2020-05-12","ids":{"openalex":"https://openalex.org/W3025792028","doi":"https://doi.org/10.3233/sw-200374","mag":"3025792028"},"language":"en","primary_location":{"id":"doi:10.3233/sw-200374","is_oa":false,"landing_page_url":"https://doi.org/10.3233/sw-200374","pdf_url":null,"source":{"id":"https://openalex.org/S4210177235","display_name":"Semantic Web","issn_l":"1570-0844","issn":["1570-0844","2210-4968"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Semantic Web","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5032067259","display_name":"Alban Gaignard","orcid":"https://orcid.org/0000-0002-3597-8557"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I4210144168","display_name":"Institut du Thorax","ror":"https://ror.org/049kkt456","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210096427","https://openalex.org/I4210144168","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Alban Gaignard","raw_affiliation_strings":["l\u2019institut du thorax, INSERM, CNRS, University of Nantes, Nantes, France. E-mail:\u00a0alban.gaignard@univ-nantes.fr"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"l\u2019institut du thorax, INSERM, CNRS, University of Nantes, Nantes, France. E-mail:\u00a0alban.gaignard@univ-nantes.fr","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210144168","https://openalex.org/I97188460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023760284","display_name":"Hala Skaf\u2010Molli","orcid":"https://orcid.org/0000-0003-1062-6659"},"institutions":[{"id":"https://openalex.org/I4210117005","display_name":"Laboratoire des Sciences du Num\u00e9rique de Nantes","ror":"https://ror.org/02snf8m58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210117005","https://openalex.org/I4210124215","https://openalex.org/I4210127572","https://openalex.org/I4210139971","https://openalex.org/I97188460","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Hala Skaf-Molli","raw_affiliation_strings":["LS2N, University of Nantes, Nantes, France. E-mail:\u00a0hala.skaf@univ-nantes.fr"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"LS2N, University of Nantes, Nantes, France. E-mail:\u00a0hala.skaf@univ-nantes.fr","institution_ids":["https://openalex.org/I4210117005","https://openalex.org/I97188460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035816930","display_name":"Khalid Belhajjame","orcid":"https://orcid.org/0000-0001-6938-0820"},"institutions":[{"id":"https://openalex.org/I56435720","display_name":"Universit\u00e9 Paris Dauphine-PSL","ror":"https://ror.org/052bz7812","country_code":"FR","type":"education","lineage":["https://openalex.org/I2746051580","https://openalex.org/I56435720"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Khalid Belhajjame","raw_affiliation_strings":["PSL, Universit\u00e9 Paris-Dauphine, LAMSADE, Paris, France. E-mail:\u00a0kbelhajj@googlemail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"PSL, Universit\u00e9 Paris-Dauphine, LAMSADE, Paris, France. E-mail:\u00a0kbelhajj@googlemail.com","institution_ids":["https://openalex.org/I56435720"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5032067259"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210144168","https://openalex.org/I97188460"],"apc_list":null,"apc_paid":null,"fwci":1.6614,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.90526612,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":95},"biblio":{"volume":"11","issue":"5","first_page":"751","last_page":"763"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9994000196456909,"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":0.9994000196456909,"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/T11937","display_name":"Research Data Management Practices","score":0.9947999715805054,"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"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9739999771118164,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.9411011934280396},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7877198457717896},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5933080911636353},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.5685290098190308},{"id":"https://openalex.org/keywords/reuse","display_name":"Reuse","score":0.5528049468994141},{"id":"https://openalex.org/keywords/workflow-technology","display_name":"Workflow technology","score":0.5350497961044312},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.533103346824646},{"id":"https://openalex.org/keywords/workflow-management-system","display_name":"Workflow management system","score":0.49837827682495117},{"id":"https://openalex.org/keywords/workflow-engine","display_name":"Workflow engine","score":0.4534873366355896},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.446682333946228},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3622402846813202},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.33364740014076233},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.3316725492477417},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.0769239068031311}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.9411011934280396},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7877198457717896},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5933080911636353},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.5685290098190308},{"id":"https://openalex.org/C206588197","wikidata":"https://www.wikidata.org/wiki/Q846574","display_name":"Reuse","level":2,"score":0.5528049468994141},{"id":"https://openalex.org/C19612761","wikidata":"https://www.wikidata.org/wiki/Q8034836","display_name":"Workflow technology","level":3,"score":0.5350497961044312},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.533103346824646},{"id":"https://openalex.org/C140824633","wikidata":"https://www.wikidata.org/wiki/Q2808660","display_name":"Workflow management system","level":3,"score":0.49837827682495117},{"id":"https://openalex.org/C188220564","wikidata":"https://www.wikidata.org/wiki/Q3325097","display_name":"Workflow engine","level":3,"score":0.4534873366355896},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.446682333946228},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3622402846813202},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.33364740014076233},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.3316725492477417},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0769239068031311},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C548081761","wikidata":"https://www.wikidata.org/wiki/Q180388","display_name":"Waste management","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3233/sw-200374","is_oa":false,"landing_page_url":"https://doi.org/10.3233/sw-200374","pdf_url":null,"source":{"id":"https://openalex.org/S4210177235","display_name":"Semantic Web","issn_l":"1570-0844","issn":["1570-0844","2210-4968"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Semantic Web","raw_type":"journal-article"},{"id":"pmh:oai:HAL:hal-02903805v1","is_oa":false,"landing_page_url":"https://hal.science/hal-02903805","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Semantic Web \u2013 Interoperability, Usability, Applicability, 2020, pp.1-13. &#x27E8;10.3233/SW-200374&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:basepub.dauphine.fr:123456789/21195","is_oa":false,"landing_page_url":"https://basepub.dauphine.fr/handle/123456789/21195","pdf_url":null,"source":{"id":"https://openalex.org/S4306401007","display_name":"Base Institutionnelle de Recherche de l'universit\u00e9 Paris-Dauphine (BIRD) (University Paris-Dauphine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I102197404","host_organization_name":"Universit\u00e9 Paris-Sud","host_organization_lineage":["https://openalex.org/I102197404"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article accept\u00e9 pour publication ou publi\u00e9"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.4000000059604645,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G6068764742","display_name":"Institut fran\u00e7ais de bioinformatique","funder_award_id":"ANR-11-INBS-0013","funder_id":"https://openalex.org/F4320320883","funder_display_name":"Agence Nationale de la Recherche"}],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1579111454","https://openalex.org/W1950977525","https://openalex.org/W1974752004","https://openalex.org/W2015191210","https://openalex.org/W2050176038","https://openalex.org/W2083870688","https://openalex.org/W2096791516","https://openalex.org/W2104846587","https://openalex.org/W2108234281","https://openalex.org/W2110417468","https://openalex.org/W2122732537","https://openalex.org/W2125920251","https://openalex.org/W2130430745","https://openalex.org/W2133504762","https://openalex.org/W2145374174","https://openalex.org/W2149378423","https://openalex.org/W2157544311","https://openalex.org/W2164516301","https://openalex.org/W2302501749","https://openalex.org/W2417483443","https://openalex.org/W2431100065","https://openalex.org/W2572857085","https://openalex.org/W2594535304","https://openalex.org/W2615031246","https://openalex.org/W2767623072","https://openalex.org/W2773787581","https://openalex.org/W2789238979","https://openalex.org/W2920437634","https://openalex.org/W2952037138","https://openalex.org/W4235777167","https://openalex.org/W4247053599","https://openalex.org/W4255738661","https://openalex.org/W6674671090","https://openalex.org/W6948752041"],"related_works":["https://openalex.org/W2049143847","https://openalex.org/W2352774566","https://openalex.org/W2356466503","https://openalex.org/W2376671203","https://openalex.org/W2391168633","https://openalex.org/W2385499106","https://openalex.org/W1574425962","https://openalex.org/W2354357087","https://openalex.org/W2387628393","https://openalex.org/W2370201914"],"abstract_inverted_index":{"While":[0],"workflow":[1,33,95,114],"systems":[2],"have":[3,17],"improved":[4],"the":[5,10,13,28,70,76,82,108,113,145],"repeatability":[6],"of":[7,12,32,72,84,104,149],"scientific":[8],"experiments,":[9],"value":[11],"processed":[14],"(intermediate)":[15,94],"data":[16,30,73,151],"been":[18],"overlooked":[19],"so":[20],"far.":[21],"In":[22],"this":[23,52,100],"paper,":[24],"we":[25,97,130],"argue":[26],"that":[27,41,120],"intermediate":[29],"products":[31,74,152],"executions":[34],"should":[35],"be":[36,44,53,141],"seen":[37],"as":[38,127],"first-class":[39],"objects":[40],"need":[42],"to":[43,55,143],"cura":[45],"ted":[46],"and":[47,58,87,116,156],"published.":[48],"Not":[49],"only":[50],"will":[51,68],"exploited":[54],"save":[56],"time":[57],"resources":[59],"needed":[60],"when":[61],"re-executing":[62],"workflows,":[63],"but":[64],"more":[65],"importantly,":[66],"it":[67],"improve":[69],"reuse":[71],"by":[75,112,123],"same":[77],"or":[78],"peer":[79],"scientists":[80],"in":[81,92,99],"context":[83],"new":[85],"hypotheses":[86],"experiments.":[88],"To":[89],"assist":[90],"curator":[91],"annotating":[93],"data,":[96],"exploit":[98],"work":[101],"multiple":[102],"sources":[103],"information,":[105],"namely:":[106],"(i)":[107],"provenance":[109,147],"information":[110,148],"captured":[111],"system,":[115],"(ii)":[117],"domain":[118],"annotations":[119],"are":[121],"provided":[122],"tools":[124],"registries,":[125],"such":[126,150],"Bio.Tools.":[128],"Furthermore,":[129],"show,":[131],"on":[132],"a":[133],"concrete":[134],"bioinformatics":[135],"scenario,":[136],"how":[137],"summarising":[138],"techniques":[139],"can":[140],"used":[142],"reduce":[144],"machine-generated":[146],"into":[153],"concise":[154],"human-":[155],"machine-readable":[157],"annotations.":[158]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
