{"id":"https://openalex.org/W3127024717","doi":"https://doi.org/10.1093/database/baaa107","title":"CausalBuilder: bringing the MI2CAST causal interaction annotation standard to the curator","display_name":"CausalBuilder: bringing the MI2CAST causal interaction annotation standard to the curator","publication_year":2020,"publication_date":"2020-12-08","ids":{"openalex":"https://openalex.org/W3127024717","doi":"https://doi.org/10.1093/database/baaa107","mag":"3127024717","pmid":"https://pubmed.ncbi.nlm.nih.gov/33547799"},"language":"en","primary_location":{"id":"doi:10.1093/database/baaa107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baaa107","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baaa107/36422627/baaa107.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baaa107/36422627/baaa107.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019876939","display_name":"Vasundra Tour\u00e9","orcid":"https://orcid.org/0000-0003-4639-4431"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Vasundra Tour\u00e9","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway"],"raw_orcid":"https://orcid.org/0000-0003-4639-4431","affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002107329","display_name":"John Zobolas","orcid":"https://orcid.org/0000-0002-3609-8674"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"John Zobolas","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway"],"raw_orcid":"https://orcid.org/0000-0002-3609-8674","affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077915624","display_name":"Martin Kuiper","orcid":"https://orcid.org/0000-0002-1171-9876"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Martin Kuiper","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway"],"raw_orcid":"https://orcid.org/0000-0002-1171-9876","affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029941306","display_name":"Steven Vercruysse","orcid":"https://orcid.org/0000-0002-3136-7353"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Steven Vercruysse","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), H\u00f8gskoleringen 5, 7491 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5019876939"],"corresponding_institution_ids":["https://openalex.org/I204778367"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.2441,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.54537124,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"2021","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998999834060669,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9998999834060669,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9969000220298767,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9933000206947327,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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":0.7750396728515625},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.6806454658508301},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6238023638725281},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.593174159526825},{"id":"https://openalex.org/keywords/data-curation","display_name":"Data curation","score":0.5826911926269531},{"id":"https://openalex.org/keywords/syntax","display_name":"Syntax","score":0.5614144206047058},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5434955954551697},{"id":"https://openalex.org/keywords/relevance","display_name":"Relevance (law)","score":0.5121905207633972},{"id":"https://openalex.org/keywords/user-interface","display_name":"User interface","score":0.49712350964546204},{"id":"https://openalex.org/keywords/statement","display_name":"Statement (logic)","score":0.44197994470596313},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.42203420400619507},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3522564172744751},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3450516164302826},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23660114407539368},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14849966764450073}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7750396728515625},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.6806454658508301},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6238023638725281},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.593174159526825},{"id":"https://openalex.org/C91632574","wikidata":"https://www.wikidata.org/wiki/Q15088675","display_name":"Data curation","level":2,"score":0.5826911926269531},{"id":"https://openalex.org/C60048249","wikidata":"https://www.wikidata.org/wiki/Q37437","display_name":"Syntax","level":2,"score":0.5614144206047058},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5434955954551697},{"id":"https://openalex.org/C158154518","wikidata":"https://www.wikidata.org/wiki/Q7310970","display_name":"Relevance (law)","level":2,"score":0.5121905207633972},{"id":"https://openalex.org/C89505385","wikidata":"https://www.wikidata.org/wiki/Q47146","display_name":"User interface","level":2,"score":0.49712350964546204},{"id":"https://openalex.org/C2777026412","wikidata":"https://www.wikidata.org/wiki/Q2684591","display_name":"Statement (logic)","level":2,"score":0.44197994470596313},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.42203420400619507},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3522564172744751},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3450516164302826},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23660114407539368},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14849966764450073},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"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/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","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/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baaa107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baaa107","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baaa107/36422627/baaa107.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:33547799","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33547799","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7904049","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7904049","pdf_url":null,"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":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baaa107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baaa107","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baaa107/36422627/baaa107.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5206314928","display_name":null,"funder_award_id":"CA15205","funder_id":"https://openalex.org/F4320320366","funder_display_name":"European Cooperation in Science and Technology"},{"id":"https://openalex.org/G5582419715","display_name":null,"funder_award_id":"247727/O70","funder_id":"https://openalex.org/F4320323299","funder_display_name":"Norges Forskningsr\u00e5d"}],"funders":[{"id":"https://openalex.org/F4320320366","display_name":"European Cooperation in Science and Technology","ror":"https://ror.org/01bstzn19"},{"id":"https://openalex.org/F4320323299","display_name":"Norges Forskningsr\u00e5d","ror":"https://ror.org/00epmv149"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":23,"referenced_works":["https://openalex.org/W1894267660","https://openalex.org/W2040184232","https://openalex.org/W2043764521","https://openalex.org/W2053655123","https://openalex.org/W2123152121","https://openalex.org/W2154139219","https://openalex.org/W2158439765","https://openalex.org/W2950595506","https://openalex.org/W2952583574","https://openalex.org/W2982368177","https://openalex.org/W3018688604","https://openalex.org/W3043986660","https://openalex.org/W3044781478","https://openalex.org/W3047436411","https://openalex.org/W3122515804","https://openalex.org/W3151252747","https://openalex.org/W3217351106","https://openalex.org/W4210702584","https://openalex.org/W4244393794","https://openalex.org/W6770440696","https://openalex.org/W6780486728","https://openalex.org/W6781616306","https://openalex.org/W6804083310"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W4405124681","https://openalex.org/W1533177136","https://openalex.org/W4380994516"],"abstract_inverted_index":{"Molecular":[0,88],"causal":[1,43,108,188],"interactions":[2,109],"are":[3,12],"defined":[4],"as":[5,142],"regulatory":[6,32],"connections":[7],"between":[8],"biological":[9,16,24,37,66],"components.":[10],"They":[11],"commonly":[13],"retrieved":[14],"from":[15],"experiments":[17],"and":[18,65,128,154,158],"can":[19,165,191],"be":[20,166,192],"used":[21],"for":[22,103],"connecting":[23],"molecules":[25],"together":[26],"to":[27,52,70,133,169,176],"enable":[28],"the":[29,57,61,72,83,104,113,121,147,179,183],"building":[30],"of":[31,74,106,146],"computational":[33],"models":[34],"that":[35,53,110,164,190],"represent":[36],"systems.":[38],"However,":[39],"including":[40],"a":[41,46,87,136],"molecular":[42,107],"interaction":[44,63],"in":[45,77,125,194],"model":[47],"requires":[48],"assessing":[49],"its":[50,126,130],"relevance":[51],"model,":[54],"based":[55],"on":[56,172],"detailed":[58],"knowledge":[59,76],"about":[60,86],"biomolecules,":[62],"type":[64],"context.":[67],"In":[68,138],"order":[69],"standardize":[71],"representation":[73],"this":[75],"'causal":[78],"statements',":[79],"we":[80,95],"recently":[81],"developed":[82],"Minimum":[84],"Information":[85],"Interaction":[89],"Causal":[90],"Statement":[91],"(MI2CAST)":[92],"guidelines.":[93],"Here,":[94],"introduce":[96],"causalBuilder:":[97],"an":[98,143,162],"intuitive":[99],"web-based":[100],"curation":[101,123,152],"interface":[102,127,163],"annotation":[105],"comply":[111],"with":[112,161],"MI2CAST":[114,122,174],"standard.":[115],"The":[116],"causalBuilder":[117,140,184],"prototype":[118,185],"essentially":[119],"embeds":[120],"guidelines":[124],"makes":[129],"rules":[131],"easy":[132],"follow":[134],"by":[135],"curator.":[137],"addition,":[139],"serves":[141],"original":[144],"application":[145],"Visual":[148],"Syntax":[149],"Method":[150],"general-purpose":[151],"technology":[153],"provides":[155],"both":[156],"curators":[157],"tool":[159],"developers":[160],"fully":[167],"configured":[168],"allow":[170],"focusing":[171],"selected":[173],"concepts":[175],"annotate.":[177],"After":[178],"information":[180],"is":[181],"entered,":[182],"produces":[186],"genuine":[187],"statements":[189],"exported":[193],"different":[195],"formats.":[196]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
