{"id":"https://openalex.org/W4393447188","doi":"https://doi.org/10.5281/zenodo.6929296","title":"OMOP2OBO Measurement Mappings","display_name":"OMOP2OBO Measurement Mappings","publication_year":2020,"publication_date":"2020-10-01","ids":{"openalex":"https://openalex.org/W4393447188","doi":"https://doi.org/10.5281/zenodo.6929296"},"language":"en","primary_location":{"id":"pmh:oai:zenodo.org:6929296","is_oa":true,"landing_page_url":"https://zenodo.org/record/6929296","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/other"},"type":"dataset","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://zenodo.org/record/6929296","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031147343","display_name":"Tiffany J. Callahan","orcid":"https://orcid.org/0000-0002-8169-9049"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Callahan, Tiffany J","raw_affiliation_strings":["Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus"],"affiliations":[{"raw_affiliation_string":"Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041814853","display_name":"Nicole Vasilevsky","orcid":"https://orcid.org/0000-0001-5208-3432"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Vasilevsky, Nicole A","raw_affiliation_strings":["Translational and Integrative Sciences Lab, University of Colorado Anschutz School of Medicine"],"affiliations":[{"raw_affiliation_string":"Translational and Integrative Sciences Lab, University of Colorado Anschutz School of Medicine","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075439357","display_name":"Tellen D. Bennett","orcid":"https://orcid.org/0000-0003-1483-4236"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bennett, Tellen D","raw_affiliation_strings":["Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037342300","display_name":"Blake Martin","orcid":"https://orcid.org/0000-0001-5683-8310"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Martin, Blake","raw_affiliation_strings":["Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039864309","display_name":"James A. Feinstein","orcid":"https://orcid.org/0000-0003-3074-8805"},"institutions":[{"id":"https://openalex.org/I163612194","display_name":"Outcomes Research Consortium","ror":"https://ror.org/041w69847","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I163612194"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Feinstein, James A","raw_affiliation_strings":["Adult and Child Consortium for Health Outcomes Research and Delivery Science (ACCORDS), University of Colorado Anschutz School of Medicine"],"affiliations":[{"raw_affiliation_string":"Adult and Child Consortium for Health Outcomes Research and Delivery Science (ACCORDS), University of Colorado Anschutz School of Medicine","institution_ids":["https://openalex.org/I163612194"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030261399","display_name":"William A. Baumgartner","orcid":"https://orcid.org/0000-0001-6717-5313"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Baumgartner, William A","raw_affiliation_strings":["Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus"],"affiliations":[{"raw_affiliation_string":"Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041860080","display_name":"Lawrence Hunter","orcid":"https://orcid.org/0000-0003-1455-3370"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hunter, Lawrence D","raw_affiliation_strings":["Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus"],"affiliations":[{"raw_affiliation_string":"Computational Bioscience Program, Department of Pharmacology, University of Colorado Anschutz Medical Campus","institution_ids":["https://openalex.org/I51713134"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060507817","display_name":"Michael G. Kahn","orcid":"https://orcid.org/0000-0003-4786-6875"},"institutions":[{"id":"https://openalex.org/I51713134","display_name":"University of Colorado Anschutz Medical Campus","ror":"https://ror.org/03wmf1y16","country_code":"US","type":"education","lineage":["https://openalex.org/I51713134"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kahn, Michael G","raw_affiliation_strings":["Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Section of Pediatric Critical Care, School of Medicine, University of Colorado Anschutz School of Medicine","institution_ids":["https://openalex.org/I51713134"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5031147343"],"corresponding_institution_ids":["https://openalex.org/I51713134"],"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":{"id":"https://openalex.org/T11325","display_name":"Inertial Sensor and Navigation","score":0.6021999716758728,"subfield":{"id":"https://openalex.org/subfields/2202","display_name":"Aerospace Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11325","display_name":"Inertial Sensor and Navigation","score":0.6021999716758728,"subfield":{"id":"https://openalex.org/subfields/2202","display_name":"Aerospace Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4416577219963074}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4416577219963074}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:zenodo.org:6929296","is_oa":true,"landing_page_url":"https://zenodo.org/record/6929296","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/other"},{"id":"doi:10.5281/zenodo.6929296","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.6929296","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:oai:zenodo.org:6929296","is_oa":true,"landing_page_url":"https://zenodo.org/record/6929296","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/other"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"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/W2478288626","https://openalex.org/W4391913857","https://openalex.org/W2350741829","https://openalex.org/W2530322880"],"abstract_inverted_index":{"<strong>OMOP2OBO":[0],"Measurement":[1],"Mappings":[2,451],"V1.0</strong>":[3],"The":[4,274],"mappings":[5,285,310,524,643,749,782],"in":[6,124,198,234,286,368,402,453,647,806],"this":[7,151,187,421,454,497,803],"repository":[8],"were":[9,69,99,207,215,293,311,372,385,399,441,456,750,784],"created":[10,523,602,612,751,785],"between":[11,480],"OMOP":[12,422,485,657,760],"standard":[13],"measurement":[14,316],"concepts":[15,300,488,658,819],"(i.e.,":[16],"LOINC)":[17],"to":[18,101,172,186,217,244,257,272,281,304,313,394,409,430,443,476,794],"the":[19,48,58,92,102,112,164,173,199,218,223,283,287,305,315,325,347,350,395,403,424,463,494,499,503,511,642,648,654,759,780,787,798,817],"Human":[20],"Phenotype":[21],"Ontology":[22,31,39,42,45,50],"(HPO),":[23],"Chemical":[24],"Entities":[25],"of":[26,57,79,114,150,163,210,349,465,484,496,656,797,824],"Biological":[27],"Interest":[28],"(CheBI),":[29],"Vaccine":[30],"(VO),":[32],"National":[33],"Center":[34],"for":[35,117,641,786],"Biotechnology":[36],"Information":[37],"Taxon":[38],"(NCBITaxon),":[40],"Protein":[41],"(PRO),":[43],"Cell":[44],"(CL),":[46],"and":[47,64,168,192,227,251,263,307,321,339,341,346,377,427,437,486,489,509,644,662,744,765,832],"Uber-anatomy":[49],"(UBERON).":[51],"For":[52,108,230,420],"each":[53,825],"measurement,":[54],"all":[55,189,360,378,481,516],"levels":[56],"test":[59,116,249,262,390,433],"result":[60,128,226,383,805],"(results":[61,205],"above,":[62],"below,":[63],"within":[65],"a":[66,80,115,127,130,147,211,239,245,252,258,381,466],"reference":[67,81,131,166,213],"range)":[68,214],"mapped,":[70],"not":[71,84,154,195,208,631,791],"only":[72,502],"those":[73],"deemed":[74,86,156],"clinically":[75,87,157,224],"relevant.":[76],"Results":[77],"outside":[78,162,209],"range,":[82],"but":[83,810],"currently":[85,269],"relevant":[88,104,225],"(as":[89],"advised":[90],"by":[91,236,659,752],"literature":[93],"or":[94,331,461,536,539,552,555,569,574,587,592,630],"consultation":[95],"via":[96,323,333,337,344,355],"domain":[97],"expert),":[98],"annotated":[100,135,171,216,373,386],"nearest":[103,174],"ontology":[105,818,826],"concept":[106,176,221,560],"ancestor.":[107],"example,":[109,231],"when":[110,412],"annotating":[111],"results":[113,204,508],"Asparagus":[118],"IgE":[119,142],"Ab":[120],"RAST":[121],"class":[122],"[Presence]":[123,233],"Serum":[125],"(LOINC:15547-3),":[126],"above":[129],"range":[132,167],"would":[133],"be":[134,155],"with":[136,202,358,518],"an":[137,413],"increased":[138],"anti-plant-based":[139],"food":[140],"allergen":[141],"antibody":[143,152],"level":[144,149,180],"(HP:0410228).":[145],"While":[146],"low":[148],"may":[153],"relevant,":[158],"it":[159],"is":[160,183,474],"still":[161],"provided":[165,640],"thus":[169],"was":[170,242,255,428],"applicable":[175],"ancestor,":[177],"abnormal":[178],"immunoglobulin":[179],"(HP:0010701).":[181],"There":[182],"one":[184],"exception":[185],"rule:":[188],"measured":[190,328,351,367],"drugs":[191],"toxins":[193],"(entities":[194],"normally":[196],"found":[197],"human":[200],"body)":[201],"normal":[203,432],"that":[206,777,783,814],"given":[212],"same":[219],"HP":[220],"as":[222,374,387],"logically":[228,264],"negated.":[229],"Amphetamine":[232],"Urine":[235],"Screen":[237],"(LOINC:19343-3),":[238],"positive":[240,246,259],"finding":[241,254],"mapped":[243,256,632],"urine":[247,260],"amphetamine":[248,261],"(HP:0500112)":[250],"negative":[253],"negated":[265],"(NOT":[266],"HP:0500112).":[267],"LOINC2HPO":[268,279,397,415],"aligns":[270],"LOINC":[271],"HP.":[273],"current":[275,795,822],"work":[276],"extends":[277],"existing":[278,309],"annotations":[280,292,398],"match":[282],"OMOP2OBO":[284,460,753,835,838,843],"following":[288],"two":[289],"ways:":[290],"(1)":[291],"updated":[294,793],"if":[295],"new":[296],"and/or":[297],"more":[298],"specific":[299],"had":[301,417],"been":[302,418,639,792],"added":[303],"HP;":[306],"(2)":[308],"expanded":[312],"include":[314],"substance":[317],"(body":[318],"fluids,":[319],"tissues,":[320],"organs":[322],"Uberon),":[324],"entity":[326],"being":[327],"(chemicals,":[329],"metabolites,":[330],"hormones":[332],"ChEBI;":[334],"cell":[335],"types":[336],"CL;":[338],"proteins":[340],"protein":[342],"complexes":[343],"PR),":[345],"species":[348],"entities":[352],"(organism":[353],"taxonomy":[354],"NCBITaxon).":[356],"Consistent":[357],"LOINC2HPO,":[359],"measurements":[361,379],"lacking":[362],"sufficient":[363],"specimen":[364],"detail":[365],"(those":[366],"non-specific":[369],"body":[370],"substances)":[371],"\u201cUnspecified":[375],"Sample\u201d":[376],"without":[380],"valid":[382],"type":[384,633],"\u201cNot":[388],"Mapped":[389],"Type\u201d.":[391],"All":[392],"modifications":[393],"original":[396,414,781],"meticulously":[400],"recorded":[401],"mapping":[404,542,558,577,595,601,611,622,629,660],"evidence":[405],"field":[406],"enabling":[407],"users":[408],"easily":[410],"identify":[411],"annotation":[416],"updated.":[419],"domain,":[423],"owl:complementOf":[425],"(\u201cnot\u201d":[426],"used":[429,442,475,820],"model":[431,469],"results),":[434],"owl:intersectionOf":[435],"(\u201cand\u201d),":[436],"owl:unionOf":[438],"(\u201cor\u201d)":[439],"constructors":[440],"construct":[444],"semantically":[445],"expressive":[446],"mappings.":[447],"<br>":[448,742],"<strong>Mapping":[449],"Details</strong><br>":[450],"included":[452],"set":[455],"generated":[457],"automatically":[458],"using":[459,470,603,613,758,828],"through":[462],"use":[464],"Bag-of-words":[467],"embedding":[468],"TF-IDF.":[471],"Cosine":[472],"similarity":[473,478],"compute":[477],"scores":[479,519],"pairwise":[482],"combinations":[483],"OBO":[487,766],"ancestor":[490],"concepts.":[491],"To":[492],"improve":[493],"efficiency":[495],"process,":[498],"algorithm":[500],"searches":[501],"top":[504,512],"\ud835\udc5b":[505],"most":[506],"similar":[507],"keeps":[510],"75th":[513],"percentile":[514],"among":[515],"pairs":[517],"&gt;=":[520],"0.25.":[521],"Manually":[522],"are":[525,645,779],"also":[526],"included.":[527],"<strong><em>Mapping":[528],"Categories</em></strong>":[529],"<strong>Automatic":[530,546,563,581],"Exact":[531,534,547,550,585,673,693],"-":[532,548,565,583,674,684,694,704,839],"Concept</strong>:":[533],"label":[535,551,568,586],"synonym,":[537,553,570,588],"dbXRef,":[538,554,571,589],"expert":[540,556,575,593,604,614],"validated":[541,557,576,594],"@":[543,559,578,596],"concept-level;":[544,579,597],"1:1":[545,562,607],"Ancestor:</strong>":[549,584],"ancestor-level;":[561],"Constructor":[564,582,683,703,728],"Concept:":[566],"</strong>Exact":[567],"cosine":[572,590],"similarity,":[573,591],"1:Many":[580,598,617],"<strong>Manual:":[599],"</strong>Hand":[600],"suggested":[605,615,621],"resources;":[606,616],"<strong>Manual":[608],"Constructor:</strong>":[609],"Hand":[610],"<strong>Concept":[618],"Similarity:</strong>":[619],"score":[620],"--":[623],"manually":[624],"verified":[625],"<strong>UnMapped:</strong>":[626],"No":[627],"suitable":[628],"<em><strong>Mapping":[634],"Statistics</strong></em><br>":[635],"Additional":[636],"statistics":[637],"have":[638,790],"shown":[646],"table":[649,652],"below.":[650],"This":[651],"presents":[653],"counts":[655],"category":[661],"ontology:":[663],"Mapping":[664],"Category":[665],"HPO":[666],"UBERON":[667],"ChEBI":[668],"CL":[669],"PR":[670],"NCBITaxon":[671],"Automatic":[672,682,692,702],"Concept":[675,685,712],"20":[676],"1981":[677],"268":[678],"129":[679],"19":[680],"286":[681],"49":[686,729],"5":[687,699,700],"0":[688,690,691,706,710,711],"24":[689],"Ancestor":[695,705],"43":[696],"426":[697],"1149":[698],"207":[701],"1":[707,709],"12":[708],"Similarity":[713],"113":[714],"50":[715],"160":[716],"35":[717],"45":[718],"56":[719],"Manual":[720,727],"10663":[721],"319":[722],"1446":[723],"185":[724],"1590":[725],"2357":[726],"1118":[730],"528":[731],"18":[732],"133":[733],"196":[734],"UnMapped":[735],"184":[736,737],"529":[738],"3688":[739],"2296":[740],"982":[741],"<strong>Provenance":[743],"Versioning:":[745],"</strong>The":[746],"V1.0":[747],"deposited":[748],"v1.0.0":[754],"on":[755,770],"October":[756],"2022":[757],"Common":[761],"Data":[762],"Model":[763],"V5.0":[764],"Foundry":[767],"ontologies":[768],"downloaded":[769],"September":[771],"14,":[772],"2020.":[773],"<strong>Caveats:</strong>":[774],"Please":[775],"note":[776],"these":[778],"preprint.":[788],"They":[789],"versions":[796,823],"ontologies.":[799],"In":[800],"our":[801],"experience,":[802],"should":[804],"very":[807],"few":[808],"errors,":[809],"we":[811],"do":[812],"suggest":[813],"you":[815],"check":[816],"against":[821],"before":[827],"them.":[829],"<strong>Important":[830],"Resources":[831],"Documentation</strong>":[833],"GitHub:":[834],"Project":[836],"Wiki:":[837],"wiki":[840],"Zenodo":[841],"Community:":[842],"Preprint":[844],"Manuscript:":[845],"10.5281/zenodo.5716421":[846]},"counts_by_year":[],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}