{"id":"https://openalex.org/W3159995189","doi":"https://doi.org/10.1093/database/baab028","title":"Challenges for FAIR-compliant description and comparison of crop phenotype data with standardized controlled vocabularies","display_name":"Challenges for FAIR-compliant description and comparison of crop phenotype data with standardized controlled vocabularies","publication_year":2021,"publication_date":"2021-01-01","ids":{"openalex":"https://openalex.org/W3159995189","doi":"https://doi.org/10.1093/database/baab028","mag":"3159995189","pmid":"https://pubmed.ncbi.nlm.nih.gov/33991093"},"language":"en","primary_location":{"id":"doi:10.1093/database/baab028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab028","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab028/37952079/baab028.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/baab028/37952079/baab028.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5029246973","display_name":"Liliana Andr\u00e9s\u2010Hern\u00e1ndez","orcid":"https://orcid.org/0000-0002-7696-731X"},"institutions":[{"id":"https://openalex.org/I66809481","display_name":"Southern Cross University","ror":"https://ror.org/001xkv632","country_code":"AU","type":"education","lineage":["https://openalex.org/I66809481"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Liliana Andr\u00e9s-Hern\u00e1ndez","raw_affiliation_strings":["Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia"],"affiliations":[{"raw_affiliation_string":"Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia","institution_ids":["https://openalex.org/I66809481"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046188926","display_name":"Razlin Azman Halimi","orcid":"https://orcid.org/0000-0003-3962-0736"},"institutions":[{"id":"https://openalex.org/I66809481","display_name":"Southern Cross University","ror":"https://ror.org/001xkv632","country_code":"AU","type":"education","lineage":["https://openalex.org/I66809481"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Razlin Azman Halimi","raw_affiliation_strings":["Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia"],"affiliations":[{"raw_affiliation_string":"Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia","institution_ids":["https://openalex.org/I66809481"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083094488","display_name":"Ramil Mauleon","orcid":"https://orcid.org/0000-0001-8512-144X"},"institutions":[{"id":"https://openalex.org/I66809481","display_name":"Southern Cross University","ror":"https://ror.org/001xkv632","country_code":"AU","type":"education","lineage":["https://openalex.org/I66809481"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Ramil Mauleon","raw_affiliation_strings":["Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia"],"affiliations":[{"raw_affiliation_string":"Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia","institution_ids":["https://openalex.org/I66809481"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030646595","display_name":"Sean Mayes","orcid":"https://orcid.org/0000-0003-4770-3662"},"institutions":[{"id":"https://openalex.org/I142263535","display_name":"University of Nottingham","ror":"https://ror.org/01ee9ar58","country_code":"GB","type":"education","lineage":["https://openalex.org/I142263535"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sean Mayes","raw_affiliation_strings":["School of Biosciences, University of Nottingham, Sutton Bonington, Leicestershire, LE12 5RD,Nottingham, Nottingham, UK"],"affiliations":[{"raw_affiliation_string":"School of Biosciences, University of Nottingham, Sutton Bonington, Leicestershire, LE12 5RD,Nottingham, Nottingham, UK","institution_ids":["https://openalex.org/I142263535"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069706536","display_name":"Abdul Baten","orcid":"https://orcid.org/0000-0003-4673-0685"},"institutions":[{"id":"https://openalex.org/I2799732068","display_name":"Royal Prince Alfred Hospital","ror":"https://ror.org/05gpvde20","country_code":"AU","type":"healthcare","lineage":["https://openalex.org/I2799732068"]},{"id":"https://openalex.org/I4210140513","display_name":"Sydney Local Health District","ror":"https://ror.org/04w6y2z35","country_code":"AU","type":"government","lineage":["https://openalex.org/I2801351115","https://openalex.org/I4210140513"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Abdul Baten","raw_affiliation_strings":["Institute of Precision Medicine & Bioinformatics, Sydney Local Health District, Royal Prince Alfred Hospital, Missenden Road, Camperdown, NSW 2050, Australia"],"affiliations":[{"raw_affiliation_string":"Institute of Precision Medicine & Bioinformatics, Sydney Local Health District, Royal Prince Alfred Hospital, Missenden Road, Camperdown, NSW 2050, Australia","institution_ids":["https://openalex.org/I2799732068","https://openalex.org/I4210140513"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079130465","display_name":"Graham J.W. King","orcid":"https://orcid.org/0000-0002-5975-6051"},"institutions":[{"id":"https://openalex.org/I66809481","display_name":"Southern Cross University","ror":"https://ror.org/001xkv632","country_code":"AU","type":"education","lineage":["https://openalex.org/I66809481"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Graham J King","raw_affiliation_strings":["Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia"],"affiliations":[{"raw_affiliation_string":"Southern Cross Plant Science, Southern Cross University, PO Box 157, Lismore, NSW 2480, Australia","institution_ids":["https://openalex.org/I66809481"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5079130465"],"corresponding_institution_ids":["https://openalex.org/I66809481"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.6436,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.66113401,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"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":0.9986000061035156,"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":0.9986000061035156,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9886000156402588,"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":0.9751999974250793,"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":0.6218329668045044},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.35950446128845215},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35941576957702637}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6218329668045044},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.35950446128845215},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35941576957702637}],"mesh":[{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069600","descriptor_name":"Plant Breeding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000071253","descriptor_name":"Metadata","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/database/baab028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab028","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab028/37952079/baab028.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:33991093","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33991093","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:nottingham-repository.worktribe.com:5560797","is_oa":true,"landing_page_url":"https://nottingham-repository.worktribe.com/output/5560797","pdf_url":null,"source":{"id":"https://openalex.org/S4306402483","display_name":"Repository@Nottingham (University of Nottingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I142263535","host_organization_name":"University of Nottingham","host_organization_lineage":["https://openalex.org/I142263535"],"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":null,"raw_type":"publishedVersion"},{"id":"pmh:oai:pubmedcentral.nih.gov:8122365","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8122365","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baab028","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baab028","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baab028/37952079/baab028.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":[],"funders":[{"id":"https://openalex.org/F4320320962","display_name":"Southern Cross University","ror":"https://ror.org/001xkv632"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3159995189.pdf","grobid_xml":"https://content.openalex.org/works/W3159995189.grobid-xml"},"referenced_works_count":73,"referenced_works":["https://openalex.org/W63100560","https://openalex.org/W164071367","https://openalex.org/W1597224589","https://openalex.org/W1831723870","https://openalex.org/W1848120038","https://openalex.org/W1971676632","https://openalex.org/W1983569077","https://openalex.org/W1999156095","https://openalex.org/W2029541254","https://openalex.org/W2030197114","https://openalex.org/W2033377040","https://openalex.org/W2055532234","https://openalex.org/W2064045631","https://openalex.org/W2074922095","https://openalex.org/W2089857530","https://openalex.org/W2097877306","https://openalex.org/W2103260426","https://openalex.org/W2109529365","https://openalex.org/W2113142309","https://openalex.org/W2117499974","https://openalex.org/W2131732194","https://openalex.org/W2143666974","https://openalex.org/W2151690004","https://openalex.org/W2166027875","https://openalex.org/W2168340032","https://openalex.org/W2229908198","https://openalex.org/W2302501749","https://openalex.org/W2349232702","https://openalex.org/W2549618915","https://openalex.org/W2582743722","https://openalex.org/W2582754818","https://openalex.org/W2586116303","https://openalex.org/W2591311356","https://openalex.org/W2607070920","https://openalex.org/W2610762723","https://openalex.org/W2738172327","https://openalex.org/W2765375876","https://openalex.org/W2770931025","https://openalex.org/W2772877400","https://openalex.org/W2779928889","https://openalex.org/W2886485194","https://openalex.org/W2891678595","https://openalex.org/W2903298154","https://openalex.org/W2913381161","https://openalex.org/W2917006451","https://openalex.org/W2920423219","https://openalex.org/W2925510773","https://openalex.org/W2945510383","https://openalex.org/W2949756071","https://openalex.org/W2955150211","https://openalex.org/W2966562087","https://openalex.org/W2977471288","https://openalex.org/W2985716559","https://openalex.org/W2990440161","https://openalex.org/W3010719749","https://openalex.org/W3011662685","https://openalex.org/W3016746669","https://openalex.org/W3085421239","https://openalex.org/W3089193614","https://openalex.org/W3111550798","https://openalex.org/W3112680654","https://openalex.org/W3209690590","https://openalex.org/W4244026550","https://openalex.org/W6602547842","https://openalex.org/W6675717626","https://openalex.org/W6682452302","https://openalex.org/W6689475862","https://openalex.org/W6733261796","https://openalex.org/W6735058248","https://openalex.org/W6770070059","https://openalex.org/W6776119697","https://openalex.org/W6802918643","https://openalex.org/W7017870318"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655","https://openalex.org/W2359140296"],"abstract_inverted_index":{"Crop":[0,88],"phenotypic":[1,64],"data":[2,65],"underpin":[3],"many":[4],"pre-breeding":[5],"efforts":[6],"to":[7,47,82,91,142,185,198,227],"characterize":[8],"variation":[9],"within":[10,171,217],"germplasm":[11],"collections.":[12],"Although":[13],"there":[14],"has":[15],"been":[16],"an":[17,78],"increase":[18],"in":[19,33,225],"the":[20,34,51,84,87,124,156,172,210,229],"global":[21],"capacity":[22],"for":[23,102,150,178],"accumulating":[24],"and":[25,42,57,61,68,120,145,163,182,201,219,231],"comparing":[26],"such":[27],"data,":[28],"a":[29,108,137,146,160,179,236],"lack":[30,139],"of":[31,37,50,63,86,94,113,118,123,127,140,166,194,212,214,233,239],"consistency":[32],"systematic":[35,181],"description":[36],"metadata":[38],"often":[39],"limits":[40],"integration":[41],"sharing.":[43],"We":[44,71,153,175],"therefore":[45],"aimed":[46],"understand":[48],"some":[49],"challenges":[52],"facing":[53],"findable,":[54],"accesible,":[55],"interoperable":[56],"reusable":[58],"(FAIR)":[59],"curation":[60,93,230],"annotation":[62],"from":[66,192,222,235],"minor":[67],"underutilized":[69,80],"crops.":[70,240],"used":[72],"bambara":[73,167],"groundnut":[74],"(Vigna":[75],"subterranea)":[76],"as":[77],"exemplar":[79],"crop":[81],"assess":[83],"ability":[85],"Ontology":[89],"system":[90],"facilitate":[92,228],"trait":[95,134,168,186],"datasets,":[96],"so":[97],"that":[98,196],"they":[99],"are":[100],"accessible":[101],"comparative":[103],"analysis.":[104],"This":[105],"involved":[106],"generating":[107],"controlled":[109,187],"vocabulary":[110],"Trait":[111],"Dictionary":[112],"134":[114],"terms.":[115],"Systematic":[116],"quantification":[117],"syntactic":[119],"semantic":[121],"cohesiveness":[122],"full":[125],"set":[126],"28":[128],"crop-specific":[129],"COs":[130],"identified":[131],"inconsistencies":[132],"between":[133],"descriptor":[135],"names,":[136],"relative":[138],"cross-referencing":[141],"other":[143,223],"ontologies":[144],"flat":[147],"ontological":[148],"structure":[149],"classifying":[151],"traits.":[152],"also":[154],"evaluated":[155],"Minimal":[157],"Information":[158],"About":[159],"Phenotyping":[161],"Experiment":[162],"FAIR":[164],"compliance":[165],"datasets":[169,234],"curated":[170],"CropStoreDB":[173],"schema.":[174],"discuss":[176],"specifications":[177],"more":[180],"generic":[183],"approach":[184],"vocabularies,":[188],"which":[189],"would":[190],"benefit":[191],"representation":[193],"terms":[195],"adhere":[197],"Open":[199],"Biological":[200],"Biomedical":[202],"Ontologies":[203],"principles.":[204],"In":[205],"particular,":[206],"we":[207],"focus":[208],"on":[209],"benefits":[211],"reuse":[213],"existing":[215],"definitions":[216],"pre-":[218],"post-composed":[220],"axioms":[221],"domains":[224],"order":[226],"comparison":[232],"wider":[237],"range":[238],"Database":[241],"URL:":[242],"https://www.cropstoredb.org/cs_bambara.html.":[243]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}