{"id":"https://openalex.org/W4410637017","doi":"https://doi.org/10.1145/3701716.3715483","title":"Bridging the Scientific Knowledge Gap and Reproducibility: A Survey of Provenance, Assertion and Evidence Ontologies","display_name":"Bridging the Scientific Knowledge Gap and Reproducibility: A Survey of Provenance, Assertion and Evidence Ontologies","publication_year":2025,"publication_date":"2025-05-08","ids":{"openalex":"https://openalex.org/W4410637017","doi":"https://doi.org/10.1145/3701716.3715483","pmid":"https://pubmed.ncbi.nlm.nih.gov/40855889"},"language":"en","primary_location":{"id":"doi:10.1145/3701716.3715483","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3701716.3715483","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3701716.3715483","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Companion Proceedings of the ACM on Web Conference 2025","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3701716.3715483","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069339163","display_name":"Tek Raj Chhetri","orcid":"https://orcid.org/0000-0002-3905-7878"},"institutions":[{"id":"https://openalex.org/I144112489","display_name":"McGovern Institute for Brain Research","ror":"https://ror.org/05ymca674","country_code":"US","type":"facility","lineage":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Tek Raj Chhetri","raw_affiliation_strings":["McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA"],"raw_orcid":"https://orcid.org/0000-0002-3905-7878","affiliations":[{"raw_affiliation_string":"McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074058957","display_name":"Yaroslav O. Halchenko","orcid":"https://orcid.org/0000-0003-3456-2493"},"institutions":[{"id":"https://openalex.org/I107672454","display_name":"Dartmouth College","ror":"https://ror.org/049s0rh22","country_code":"US","type":"education","lineage":["https://openalex.org/I107672454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yaroslav O. Halchenko","raw_affiliation_strings":["Department of Psychological and Brain Sciences, Dartmouth College, Hanover, NH, USA"],"raw_orcid":"https://orcid.org/0000-0003-3456-2493","affiliations":[{"raw_affiliation_string":"Department of Psychological and Brain Sciences, Dartmouth College, Hanover, NH, USA","institution_ids":["https://openalex.org/I107672454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031653755","display_name":"Dorota Jarecka","orcid":"https://orcid.org/0000-0001-8282-2988"},"institutions":[{"id":"https://openalex.org/I144112489","display_name":"McGovern Institute for Brain Research","ror":"https://ror.org/05ymca674","country_code":"US","type":"facility","lineage":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dorota Jarecka","raw_affiliation_strings":["McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA"],"raw_orcid":"https://orcid.org/0000-0001-8282-2988","affiliations":[{"raw_affiliation_string":"McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Puja Trivedi","orcid":"https://orcid.org/0009-0001-5308-8005"},"institutions":[{"id":"https://openalex.org/I144112489","display_name":"McGovern Institute for Brain Research","ror":"https://ror.org/05ymca674","country_code":"US","type":"facility","lineage":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Puja Trivedi","raw_affiliation_strings":["McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA"],"raw_orcid":"https://orcid.org/0009-0001-5308-8005","affiliations":[{"raw_affiliation_string":"McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051194003","display_name":"Satrajit Ghosh","orcid":"https://orcid.org/0000-0002-5312-6729"},"institutions":[{"id":"https://openalex.org/I144112489","display_name":"McGovern Institute for Brain Research","ror":"https://ror.org/05ymca674","country_code":"US","type":"facility","lineage":["https://openalex.org/I144112489","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Satrajit S. Ghosh","raw_affiliation_strings":["McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA"],"raw_orcid":"https://orcid.org/0000-0002-5312-6729","affiliations":[{"raw_affiliation_string":"McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA","institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075752483","display_name":"Patrick L. Ray","orcid":"https://orcid.org/0000-0002-5260-9315"},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Patrick Ray","raw_affiliation_strings":["Allen Institute for Brain Science, Seattle, WA, USA"],"raw_orcid":"https://orcid.org/0000-0002-5260-9315","affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science, Seattle, WA, USA","institution_ids":["https://openalex.org/I4210140341","https://openalex.org/I1314596251"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074982934","display_name":"Lydia Ng","orcid":"https://orcid.org/0000-0002-7499-3514"},"institutions":[{"id":"https://openalex.org/I1314596251","display_name":"Allen Institute for Brain Science","ror":"https://ror.org/00dcv1019","country_code":"US","type":"facility","lineage":["https://openalex.org/I1314596251","https://openalex.org/I4210140341"]},{"id":"https://openalex.org/I4210140341","display_name":"Allen Institute","ror":"https://ror.org/03cpe7c52","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210140341"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lydia Ng","raw_affiliation_strings":["Allen Institute for Brain Science, Seattle, WA, USA"],"raw_orcid":"https://orcid.org/0000-0002-7499-3514","affiliations":[{"raw_affiliation_string":"Allen Institute for Brain Science, Seattle, WA, USA","institution_ids":["https://openalex.org/I4210140341","https://openalex.org/I1314596251"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5069339163"],"corresponding_institution_ids":["https://openalex.org/I144112489","https://openalex.org/I63966007"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11494894,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"2025","issue":"Companion","first_page":"924","last_page":"928"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9983000159263611,"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":0.9983000159263611,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9891999959945679,"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/T11937","display_name":"Research Data Management Practices","score":0.9825000166893005,"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/assertion","display_name":"Assertion","score":0.8586329221725464},{"id":"https://openalex.org/keywords/bridging","display_name":"Bridging (networking)","score":0.8429189920425415},{"id":"https://openalex.org/keywords/provenance","display_name":"Provenance","score":0.5603585839271545},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5291990041732788},{"id":"https://openalex.org/keywords/reproducibility","display_name":"Reproducibility","score":0.48083052039146423},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.42197978496551514},{"id":"https://openalex.org/keywords/knowledge-management","display_name":"Knowledge management","score":0.3850056231021881},{"id":"https://openalex.org/keywords/epistemology","display_name":"Epistemology","score":0.2538909912109375},{"id":"https://openalex.org/keywords/philosophy","display_name":"Philosophy","score":0.10049483180046082},{"id":"https://openalex.org/keywords/computer-security","display_name":"Computer security","score":0.08324688673019409},{"id":"https://openalex.org/keywords/geology","display_name":"Geology","score":0.08008918166160583}],"concepts":[{"id":"https://openalex.org/C40422974","wikidata":"https://www.wikidata.org/wiki/Q741248","display_name":"Assertion","level":2,"score":0.8586329221725464},{"id":"https://openalex.org/C174348530","wikidata":"https://www.wikidata.org/wiki/Q188635","display_name":"Bridging (networking)","level":2,"score":0.8429189920425415},{"id":"https://openalex.org/C2780049196","wikidata":"https://www.wikidata.org/wiki/Q23582628","display_name":"Provenance","level":2,"score":0.5603585839271545},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5291990041732788},{"id":"https://openalex.org/C9893847","wikidata":"https://www.wikidata.org/wiki/Q1425625","display_name":"Reproducibility","level":2,"score":0.48083052039146423},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.42197978496551514},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.3850056231021881},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.2538909912109375},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.10049483180046082},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.08324688673019409},{"id":"https://openalex.org/C127313418","wikidata":"https://www.wikidata.org/wiki/Q1069","display_name":"Geology","level":0,"score":0.08008918166160583},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C5900021","wikidata":"https://www.wikidata.org/wiki/Q163082","display_name":"Petrology","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1145/3701716.3715483","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3701716.3715483","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3701716.3715483","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Companion Proceedings of the ACM on Web Conference 2025","raw_type":"proceedings-article"},{"id":"pmid:40855889","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40855889","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the ... International World-Wide Web Conference. International WWW Conference","raw_type":null},{"id":"pmh:oai:dspace.mit.edu:1721.1/162576","is_oa":true,"landing_page_url":"https://hdl.handle.net/1721.1/162576","pdf_url":"https://dspace.mit.edu/bitstream/1721.1/162576/1/3701716.3715483.pdf","source":{"id":"https://openalex.org/S4306400425","display_name":"DSpace@MIT (Massachusetts Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I63966007","host_organization_name":"Massachusetts Institute of Technology","host_organization_lineage":["https://openalex.org/I63966007"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Association for Computing Machinery","raw_type":"http://purl.org/eprint/type/ConferencePaper"},{"id":"pmh:oai:pubmedcentral.nih.gov:12376154","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12376154","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12376154/pdf/nihms-2095883.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Proc Int World Wide Web Conf","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1145/3701716.3715483","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3701716.3715483","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3701716.3715483","source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Companion Proceedings of the ACM on Web Conference 2025","raw_type":"proceedings-article"},"sustainable_development_goals":[{"display_name":"Gender equality","id":"https://metadata.un.org/sdg/5","score":0.6600000262260437}],"awards":[{"id":"https://openalex.org/G1790599155","display_name":null,"funder_award_id":"R24MH117295","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4269987377","display_name":null,"funder_award_id":"1U24MH130918-01","funder_id":"https://openalex.org/F4320323817","funder_display_name":"Universitas Brawijaya"},{"id":"https://openalex.org/G7667400441","display_name":null,"funder_award_id":"P41EB019936","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320323817","display_name":"Universitas Brawijaya","ror":"https://ror.org/01wk3d929"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410637017.pdf","grobid_xml":"https://content.openalex.org/works/W4410637017.grobid-xml"},"referenced_works_count":6,"referenced_works":["https://openalex.org/W2406493898","https://openalex.org/W2546530173","https://openalex.org/W2562051831","https://openalex.org/W3154754686","https://openalex.org/W4361000714","https://openalex.org/W4401808752"],"related_works":["https://openalex.org/W1498103021","https://openalex.org/W4230849338","https://openalex.org/W4295166216","https://openalex.org/W2177044681","https://openalex.org/W1968067090","https://openalex.org/W2345942070","https://openalex.org/W2141398161","https://openalex.org/W2016410697","https://openalex.org/W39611005","https://openalex.org/W653076280"],"abstract_inverted_index":{"The":[0],"rapid":[1],"growth":[2],"of":[3,67],"scientific":[4],"publications":[5],"and":[6,23,31,42,57,59,75],"evolving":[7],"experimental":[8],"paradigms":[9],"create":[10],"significant":[11],"challenges":[12,74],"in":[13],"staying":[14],"up-to-date":[15],"with":[16],"current":[17,69],"advances.":[18],"Assertions":[19],"are":[20],"often":[21],"unstructured":[22],"have":[24],"limited":[25],"provenance,":[26],"which":[27],"hinders":[28],"reproducibility.":[29,46],"Ontologies":[30],"knowledge":[32],"graphs":[33],"(KGs)":[34],"offer":[35],"structured":[36],"solutions":[37],"by":[38],"capturing":[39],"assertions,":[40],"evidence,":[41],"provenance":[43,62],"to":[44],"support":[45],"This":[47],"paper":[48],"reviews":[49],"23":[50],"ontologies":[51],"-":[52,63],"13":[53],"focused":[54],"on":[55,61],"assertions":[56],"evidence":[58],"10":[60],"providing":[64],"an":[65],"overview":[66],"the":[68],"landscape":[70],"while":[71],"highlighting":[72],"key":[73],"opportunities":[76],"for":[77],"improvement.":[78]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
