{"id":"https://openalex.org/W7128623576","doi":"https://doi.org/10.5281/zenodo.18543814","title":"CPL-Gold-Entity-Link: annotated entity linking corpus between publications and executable code for Nextflow workflows","display_name":"CPL-Gold-Entity-Link: annotated entity linking corpus between publications and executable code for Nextflow workflows","publication_year":2026,"publication_date":"2026-02-01","ids":{"openalex":"https://openalex.org/W7128623576","doi":"https://doi.org/10.5281/zenodo.18543814"},"language":null,"primary_location":{"id":"pmh:doi:10.5281/zenodo.18543813","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":null,"any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069188227","display_name":"Cl\u00e9mence Sebe","orcid":"https://orcid.org/0000-0003-1988-1875"},"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/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4387152856","display_name":"Laboratoire Interdisciplinaire des Sciences du Num\u00e9rique","ror":"https://ror.org/00rd81916","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I277688954","https://openalex.org/I4387152856"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Sebe, Clemence","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France"],"raw_orcid":"https://orcid.org/0000-0003-1988-1875","affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I1294671590","https://openalex.org/I4387152856"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088565202","display_name":"Olivier Ferret","orcid":"https://orcid.org/0000-0003-0755-2361"},"institutions":[{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210085861","display_name":"Laboratoire d'Int\u00e9gration des Syst\u00e8mes et des Technologies","ror":"https://ror.org/000dbcc61","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210085861","https://openalex.org/I4210117989"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Ferret, Olivier","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay, CEA, Institut LIST, 91191, Gif-sur-Yvette, France"],"raw_orcid":"https://orcid.org/0000-0003-0755-2361","affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay, CEA, Institut LIST, 91191, Gif-sur-Yvette, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I2738703131","https://openalex.org/I4210085861"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5125665592","display_name":"Aur\u00e9lie N\u00e9v\u00e9ol","orcid":null},"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/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4387152856","display_name":"Laboratoire Interdisciplinaire des Sciences du Num\u00e9rique","ror":"https://ror.org/00rd81916","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I277688954","https://openalex.org/I4387152856"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"N\u00e9v\u00e9ol, Aur\u00e9lie","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France"],"raw_orcid":"https://orcid.org/0000-0002-1846-9144","affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I1294671590","https://openalex.org/I4387152856"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5125679787","display_name":"Sarah COHEN-BOULAKIA","orcid":null},"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/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4387152856","display_name":"Laboratoire Interdisciplinaire des Sciences du Num\u00e9rique","ror":"https://ror.org/00rd81916","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I277688954","https://openalex.org/I4387152856"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"COHEN-BOULAKIA, Sarah","raw_affiliation_strings":["Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France"],"raw_orcid":"https://orcid.org/0000-0002-7439-1441","affiliations":[{"raw_affiliation_string":"Universit\u00e9 Paris-Saclay, CNRS, LISN, 91400, Orsay, France","institution_ids":["https://openalex.org/I277688954","https://openalex.org/I1294671590","https://openalex.org/I4387152856"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":null,"topics":[],"keywords":[{"id":"https://openalex.org/keywords/executable","display_name":"Executable","score":0.8988000154495239},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7361000180244446},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.5432999730110168},{"id":"https://openalex.org/keywords/agency","display_name":"Agency (philosophy)","score":0.4097000062465668},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4077000021934509}],"concepts":[{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.8988000154495239},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7687000036239624},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7361000180244446},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.5432999730110168},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.427700012922287},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.4101000130176544},{"id":"https://openalex.org/C108170787","wikidata":"https://www.wikidata.org/wiki/Q3951828","display_name":"Agency (philosophy)","level":2,"score":0.4097000062465668},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4077000021934509},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3894999921321869},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3749000132083893},{"id":"https://openalex.org/C97250363","wikidata":"https://www.wikidata.org/wiki/Q235557","display_name":"File format","level":2,"score":0.33090001344680786},{"id":"https://openalex.org/C18762648","wikidata":"https://www.wikidata.org/wiki/Q42213","display_name":"Work (physics)","level":2,"score":0.2671999931335449},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.2554999887943268}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:doi:10.5281/zenodo.18543813","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},{"id":"doi:10.5281/zenodo.18543814","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.18543814","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Dataset"}],"best_oa_location":{"id":"pmh:doi:10.5281/zenodo.18543813","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Dataset"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"CPL-Gold-Entity-Link":[0],"is":[1,25],"an":[2],"annotated":[3],"entity":[4],"linking":[5],"corpus":[6,24],"between":[7],"publications":[8],"and":[9,34,62,86],"executable":[10],"code":[11,85],"for":[12],"Nextflow":[13],"workflows.":[14],"These":[15],"annotations":[16],"are":[17,41,55],"available":[18],"in":[19,82],"the":[20,60,65,73,83,92,105,110],"YAML":[21,48],"format.":[22],"This":[23,45,100],"composed":[26],"of":[27,72],"15":[28],"workflows":[29],"extracted":[30],"from":[31,104],"CPL-Article":[32],"(https://doi.org/10.5281/zenodo.18526700)":[33],"CPL-Code":[35],"(https://doi.org/10.5281/zenodo.18526760).":[36],"190":[37],"potentials":[38],"cross-model":[39],"links":[40,81],"represented.":[42],"Repository":[43],"organisation":[44],"repository":[46],"contains":[47],"files.":[49],"For":[50],"each":[51],"workflow,":[52],"two":[53],"files":[54],"associated:":[56],"one":[57,63],"corresponding":[58],"to":[59,64,116],"article":[61],"code.":[66],"Each":[67],"file":[68],"includes":[69],"a":[70],"list":[71],"bioinformatics":[74],"tools":[75],"mentioned,":[76],"along":[77],"with":[78,114],"their":[79],"potential":[80],"associated":[84],"possible":[87],"alternative":[88],"tool":[89],"formulations":[90],"within":[91],"same":[93],"source.":[94],"Contact":[95],"Cl\u00e9mence":[96],"Sebe,":[97],"clemence.sebe@universite-paris-saclay.fr":[98],"Funding":[99],"work":[101],"received":[102],"support":[103],"National":[106],"Research":[107],"Agency":[108],"under":[109],"France":[111],"2030":[112],"program,":[113],"reference":[115],"ANR-22-PESN-0007.":[117]},"counts_by_year":[],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2026-02-12T00:00:00"}
