{"id":"https://openalex.org/W4393908002","doi":"https://doi.org/10.5281/zenodo.6413405","title":"Structure Annotations of Assessment and Plan Sections from MIMIC-III","display_name":"Structure Annotations of Assessment and Plan Sections from MIMIC-III","publication_year":2022,"publication_date":"2022-04-05","ids":{"openalex":"https://openalex.org/W4393908002","doi":"https://doi.org/10.5281/zenodo.6413405"},"language":"en","primary_location":{"id":"pmh:oai:zenodo.org:6413405","is_oa":true,"landing_page_url":"https://zenodo.org/record/6413405","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/6413405","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018851668","display_name":"Doron Stupp","orcid":"https://orcid.org/0000-0002-1556-666X"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stupp, Doron","raw_affiliation_strings":["Google"],"raw_orcid":"https://orcid.org/0000-0002-1556-666X","affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014040341","display_name":"Ronnie Barequet","orcid":null},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barequet, Ronnie","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065854081","display_name":"I\u2010Ching Lee","orcid":"https://orcid.org/0000-0003-0520-4435"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lee, I-Ching","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016131858","display_name":"Eyal Oren","orcid":"https://orcid.org/0000-0001-7817-3516"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Oren, Eyal","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056266191","display_name":"Amir Feder","orcid":"https://orcid.org/0000-0001-5472-1135"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Feder, Amir","raw_affiliation_strings":["Google"],"raw_orcid":"https://orcid.org/0000-0001-5472-1135","affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039832669","display_name":"Ayelet Benjamini","orcid":null},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Benjamini, Ayelet","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089579452","display_name":"Avinatan Hassidim","orcid":"https://orcid.org/0000-0002-3855-344X"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hassidim, Avinatan","raw_affiliation_strings":["Google"],"raw_orcid":"https://orcid.org/0000-0002-3855-344X","affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065128060","display_name":"Yossi Matias","orcid":"https://orcid.org/0000-0003-3960-6002"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matias, Yossi","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078910984","display_name":"E. O. Ofek","orcid":"https://orcid.org/0000-0002-6786-8774"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ofek, Eran","raw_affiliation_strings":["Google"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022388476","display_name":"Alvin Rajkomar","orcid":"https://orcid.org/0000-0001-5750-5016"},"institutions":[{"id":"https://openalex.org/I1291425158","display_name":"Google (United States)","ror":"https://ror.org/00njsd438","country_code":"US","type":"company","lineage":["https://openalex.org/I1291425158","https://openalex.org/I4210128969"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rajkomar, Alvin","raw_affiliation_strings":["Google"],"raw_orcid":"https://orcid.org/0000-0001-5750-5016","affiliations":[{"raw_affiliation_string":"Google","institution_ids":["https://openalex.org/I1291425158"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"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":{"id":"https://openalex.org/T11450","display_name":"Model-Driven Software Engineering Techniques","score":0.18029999732971191,"subfield":{"id":"https://openalex.org/subfields/1712","display_name":"Software"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11450","display_name":"Model-Driven Software Engineering Techniques","score":0.18029999732971191,"subfield":{"id":"https://openalex.org/subfields/1712","display_name":"Software"},"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/plan","display_name":"Plan (archaeology)","score":0.5403833985328674},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4768413305282593},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.34564560651779175},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.32946693897247314},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22049632668495178},{"id":"https://openalex.org/keywords/paleontology","display_name":"Paleontology","score":0.09453719854354858}],"concepts":[{"id":"https://openalex.org/C2776505523","wikidata":"https://www.wikidata.org/wiki/Q4785468","display_name":"Plan (archaeology)","level":2,"score":0.5403833985328674},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4768413305282593},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34564560651779175},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.32946693897247314},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22049632668495178},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.09453719854354858}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:zenodo.org:6413405","is_oa":true,"landing_page_url":"https://zenodo.org/record/6413405","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.6413405","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.6413405","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"dataset"}],"best_oa_location":{"id":"pmh:oai:zenodo.org:6413405","is_oa":true,"landing_page_url":"https://zenodo.org/record/6413405","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":{"pdf":false,"grobid_xml":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":{"Physicians":[0],"record":[1],"their":[2,192],"detailed":[3],"thought-processes":[4],"about":[5],"diagnoses":[6],"and":[7,22,49,64,71,75,109,112,115,118,121,124,127,130,133,142,175,184,195,228,251,297,309],"treatments":[8],"as":[9,90,204,279,312,362,425,463],"unstructured":[10],"text":[11,337],"in":[12,85,144,272,284,314,344,365],"a":[13,16,58,91,238,366],"section":[14],"of":[15,46,60,140,173,178,206,217,261,263,338,379,386,417,422,441,451],"clinical":[17,47],"note":[18,434],"called":[19],"the":[20,44,68,86,181,189,259,264,267,273,285,315,330,336,339,345,370,388,398,408,423,455],"\"assessment":[21],"plan\".":[23],"This":[24],"information":[25],"is":[26,232,342,353,457],"more":[27],"clinically":[28],"rich":[29],"than":[30],"structured":[31],"billing":[32],"codes":[33],"assigned":[34],"for":[35,303,396],"an":[36,252,280,458],"encounter":[37],"but":[38],"harder":[39],"to":[40,80,292,326,334,351,354,407],"reliably":[41],"extract":[42],"given":[43,361],"complexity":[45],"language":[48],"documentation":[50],"habits.":[51],"To":[52],"structure":[53],"these":[54,328],"sections":[55,66,177],"we":[56],"collected":[57],"dataset":[59,212,231],"annotations":[61,172,216,260],"over":[62,214,266],"assessment":[63,174,193],"plan":[65,176,196],"from":[67,180,220,348,433],"publicly":[69,182],"available":[70,89,183,320],"de-identified":[72,185],"MIMIC-III":[73,186,409],"dataset,":[74,168,187],"developed":[76],"deep-learning":[77],"based":[78],"models":[79,311],"perform":[81],"this":[82,97],"task,":[83],"described":[84,313],"associated":[87],"paper":[88,316],"pre-print":[92],"at:":[93],"https://www.medrxiv.org/content/10.1101/2022.04.13.22273438v1":[94],"When":[95],"using":[96],"data":[98],"please":[99],"cite":[100],"our":[101],"paper:":[102],"<pre><code>@article":[103],"{Stupp2022.04.13.22273438,":[104],"author":[105],"=":[106,137,148,151,154,161,164],"{Stupp,":[107],"Doron":[108],"Barequet,":[110],"Ronnie":[111],"Lee,":[113],"I-Ching":[114],"Oren,":[116],"Eyal":[117],"Feder,":[119],"Amir":[120],"Benjamini,":[122],"Ayelet":[123],"Hassidim,":[125],"Avinatan":[126],"Matias,":[128],"Yossi":[129],"Ofek,":[131],"Eran":[132],"Rajkomar,":[134],"Alvin},":[135],"title":[136],"{Structured":[138],"Understanding":[139],"Assessment":[141],"Plans":[143],"Clinical":[145],"Documentation},":[146],"year":[147],"{2022},":[149],"doi":[150],"{10.1101/2022.04.13.22273438},":[152],"publisher":[153],"{Cold":[155],"Spring":[156],"Harbor":[157],"Laboratory":[158],"Press},":[159],"URL":[160],"{https://www.medrxiv.org/content/early/2022/04/17/2022.04.13.22273438},":[162],"journal":[163],"{medRxiv}":[165],"}</code></pre>":[166],"The":[167,211,230,255,287,384,402],"presented":[169],"here,":[170],"contains":[171,213,258],"notes":[179,219,340,410],"marking":[188],"active":[190],"problems,":[191],"description,":[194],"action":[197,452,459],"items.":[198],"Action":[199],"items":[200],"are":[201,360],"additionally":[202,332],"marked":[203],"one":[205],"8":[207],"categories":[208],"(listed":[209],"below).":[210],"30,000":[215],"579":[218],"distinct":[221],"patients,":[222],"annotated":[223,426,464],"by":[224,427,465],"6":[225],"medical":[226],"residents":[227],"students.":[229],"divided":[233],"into":[234,306],"4":[235],"partitions":[236],"-":[237],"training":[239,310],"set":[240,244,248,257,275,385],"(481":[241],"notes),":[242,246],"validation":[243],"(50":[245],"test":[247,268],"(48":[249],"notes)":[250],"inter-rater":[253,256,274],"set.":[254,269],"each":[262,397],"raters":[265,399],"Rater":[270],"1":[271],"should":[276],"be":[277,318,355],"regarded":[278],"intra-rater":[281],"comparison":[282],"(details":[283],"paper).":[286],"labels":[288,305],"underwent":[289],"automatic":[290],"normalization":[291],"capture":[293],"entire":[294],"word":[295],"boundaries":[296],"remove":[298],"flanking":[299],"non-alphanumeric":[300],"characters.":[301],"Code":[302],"transforming":[304],"TensorFlow":[307],"examples":[308],"will":[317],"made":[319],"at":[321],"GitHub:":[322],"https://github.com/google-research/google-research/tree/master/assessment_plan_modeling":[323],"In":[324],"order":[325],"use":[327],"annotations,":[329],"user":[331],"needs":[333],"obtain":[335],"which":[341,352],"found":[343],"NOTE_EVENTS":[346],"table":[347,411],"MIMIC-III,":[349],"access":[350],"acquired":[356],"independently":[357],"(https://mimic.mit.edu/)":[358],"Annotations":[359],"character":[363],"spans":[364],"CSV":[367],"file":[368],"with":[369],"following":[371],"schema:":[372],"Field":[373],"Type":[374,421,450],"Semantics":[375],"partition":[376],"categorical":[377,415,439],"(one":[378,416,440],"[train,":[380],"val,":[381],"test,":[382],"interrater]":[383],"ratings":[387],"span":[389,424,456],"belongs":[390],"to.":[391],"rater_id":[392],"int":[393,401,430,437],"Unique":[394],"id":[395],"note_id":[400],"note\u2019s":[403],"unique":[404],"note_id,":[405],"links":[406],"(as":[412],"ROW-ID).":[413],"span_type":[414],"[PROBLEM_TITLE,<br>":[418],"PROBLEM_DESCRIPTION,":[419],"ACTION_ITEM]":[420],"raters.":[428,466],"char_start":[429],"Character":[431],"offsets":[432],"start":[435],"char_end":[436],"action_item_type":[438],"[MEDICATIONS,":[442],"IMAGING,":[443],"OBSERVATIONS_LABS,":[444],"CONSULTS,":[445],"NUTRITION,":[446],"THERAPEUTIC_PROCEDURES,":[447],"OTHER_DIAGNOSTIC_PROCEDURES,":[448],"OTHER])":[449],"item":[453,460],"if":[454],"(empty":[461],"otherwise)":[462]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
