Name
CCU002_01 COVID19 infection
Type
Disease or Syndrome
Group
Disease or Syndrome
Data Sources
Trusted Research Environments for CVD-COVID-UK / COVID-IMPACT
GPES Data for Pandemic Planning and Research (COVID-19)
Hospital Episode Statistics Admitted Patient Care
Civil Registration - Deaths
Covid-19 Second Generation Surveillance System
COVID-19 SARI-Watch (formerly CHESS)
Secondary Uses Services Payment By Results
Clinical Terminologies
SNOMED-CT
ICD-10
Codelists
covid_impact_ccu01301_01_GP_covid_diagnosis_England_SNOMEDCT.csv
covid_impact_ccu01301_02_Covid_admission_England_ICD10.csv
covid_impact_ccu01301_03_ECMO_treatment_England_OPCS.csv
covid_impact_ccu01301_03_IMV_treatment_England_OPCS.csv
covid_impact_ccu01301_03_NIV_treatment_England_OPCS.csv
covid_impact_ccu01301_04_Fatal_with_covid_diagnosis_England_ICD10.csv
Valid Event Data Range
23/01/2020 - 31/05/2021
Sex
Female Male
Authors
Johan H Thygesen, Christopher Tomlinson, Sam Hollings, Mehrdad Mizani, Alex Handy, Ashley Akbari, Amitava Banerjee, Jennifer Cooper, Alvina Lai, Ken Li, Bilal Mateen, Naveed Sattar, Reecha Sofat, Ana Torralbo, Honghan Wu, Angela Wood, Jonathan A C Sterne, Christina Pagel, William Whiteley, Cathie Sudlow, Harry Hemingway, Spiros Denaxas
Agreement Date
9 Nov 2021
Version (UUID)
Revision 1 (COVID-IMPACT)
Publication
Understanding COVID-19 trajectories from a nationwide linked electronic health record cohort of 56 million people: phenotypes, severity, waves & vaccination
Johan H Thygesen, Christopher Tomlinson, Sam Hollings, Mehrdad Mizani, Alex Handy, Ashley Akbari, Amitava Banerjee, Jennifer Cooper, Alvina Lai, Ken Li, Bilal Mateen, Naveed Sattar, Reecha Sofat, Ana Torralbo, Honghan Wu, Angela Wood, Jonathan A C Sterne, Christina Pagel, William Whiteley, Cathie Sudlow, Harry Hemingway, Spiros Denaxas
medRxiv 2021.11.08.21265312; doi: https://doi.org/10.1101/2021.11.08.21265312
Primary care EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
01_GP_covid_diagnosis
1008541000000105
SNOMEDCT
Coronavirus ribonucleic acid detection assay (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1029481000000103
SNOMEDCT
Coronavirus nucleic acid detection assay (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
120814005
SNOMEDCT
Coronavirus antibody (substance)
confirmed
GDPPR
01_GP_covid_diagnosis
1240381000000105
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 (organism)
confirmed
GDPPR
01_GP_covid_diagnosis
1240391000000107
SNOMEDCT
Antigen of severe acute respiratory syndrome coronavirus 2 (substance)
confirmed
GDPPR
01_GP_covid_diagnosis
1240401000000105
SNOMEDCT
Antibody to severe acute respiratory syndrome coronavirus 2 (substance)
confirmed
GDPPR
01_GP_covid_diagnosis
1240411000000107
SNOMEDCT
Ribonucleic acid of severe acute respiratory syndrome coronavirus 2 (substance)
confirmed
GDPPR
01_GP_covid_diagnosis
1240421000000101
SNOMEDCT
Serotype severe acute respiratory syndrome coronavirus 2 (qualifier value)
confirmed
GDPPR
01_GP_covid_diagnosis
1240511000000106
SNOMEDCT
Detection of severe acute respiratory syndrome coronavirus 2 using polymerase chain reaction technique (procedure)
confirmed
GDPPR
01_GP_covid_diagnosis
1240521000000100
SNOMEDCT
Otitis media caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240531000000103
SNOMEDCT
Myocarditis caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240541000000107
SNOMEDCT
Infection of upper respiratory tract caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240551000000105
SNOMEDCT
Pneumonia caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240561000000108
SNOMEDCT
Encephalopathy caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240571000000101
SNOMEDCT
Gastroenteritis caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1240581000000104
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 ribonucleic acid detected (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
1240741000000103
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 serology (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1240751000000100
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1300631000000101
SNOMEDCT
Coronavirus disease 19 severity score (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1300671000000104
SNOMEDCT
Coronavirus disease 19 severity scale (assessment scale)
confirmed
GDPPR
01_GP_covid_diagnosis
1300681000000102
SNOMEDCT
Assessment using coronavirus disease 19 severity scale (procedure)
confirmed
GDPPR
01_GP_covid_diagnosis
1300721000000109
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 confirmed by laboratory test (situation)
confirmed
GDPPR
01_GP_covid_diagnosis
1300731000000106
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 confirmed using clinical diagnostic criteria (situation)
confirmed
GDPPR
01_GP_covid_diagnosis
1321181000000108
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 record extraction simple reference set (foundation metadata concept)
confirmed
GDPPR
01_GP_covid_diagnosis
1321191000000105
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 procedures simple reference set (foundation metadata concept)
confirmed
GDPPR
01_GP_covid_diagnosis
1321201000000107
SNOMEDCT
Coronavirus disease 19 caused by severe acute respiratory syndrome coronavirus 2 health issues simple reference set (foundation metadata concept)
confirmed
GDPPR
01_GP_covid_diagnosis
1321241000000105
SNOMEDCT
Cardiomyopathy caused by severe acute respiratory syndrome coronavirus 2 (disorder)
confirmed
GDPPR
01_GP_covid_diagnosis
1321301000000101
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 ribonucleic acid qualitative existence in specimen (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321311000000104
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin M qualitative existence in specimen (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321321000000105
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin G qualitative existence in specimen (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321331000000107
SNOMEDCT
Arbitrary concentration of severe acute respiratory syndrome coronavirus 2 total immunoglobulin in serum (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321341000000103
SNOMEDCT
Arbitrary concentration of severe acute respiratory syndrome coronavirus 2 immunoglobulin G in serum (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321351000000100
SNOMEDCT
Arbitrary concentration of severe acute respiratory syndrome coronavirus 2 immunoglobulin M in serum (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321541000000108
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin G detected (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
1321551000000106
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin M detected (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
1321761000000103
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin A detected (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
1321801000000108
SNOMEDCT
Arbitrary concentration of severe acute respiratory syndrome coronavirus 2 immunoglobulin A in serum (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1321811000000105
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 immunoglobulin A qualitative existence in specimen (observable entity)
confirmed
GDPPR
01_GP_covid_diagnosis
1322781000000102
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 antigen detection result positive (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
1322871000000109
SNOMEDCT
Severe acute respiratory syndrome coronavirus 2 antibody detection result positive (finding)
confirmed
GDPPR
01_GP_covid_diagnosis
186747009
SNOMEDCT
Coronavirus infection (disorder)
confirmed
GDPPR
Hospitalization EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
02_Covid_admission
U07.1
ICD10
Confirmed_COVID19
confirmed
HES APC
02_Covid_admission
U07.2
ICD10
Suspected_COVID19
suspected
HES APC
02_Covid_admission
U07.1
ICD10
Confirmed_COVID19
confirmed
SUS
02_Covid_admission
U07.2
ICD10
Suspected_COVID19
suspected
SUS
Primary care EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
03_ECMO_treatment
X58.1
OPCS
Extracorporeal membrane oxygenation
confirmed
HES APC
03_ECMO_treatment
X58.1
OPCS
Extracorporeal membrane oxygenation
confirmed
SUS
Primary care EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
03_IMV_treatment
E85.1
OPCS
Invasive ventilation
confirmed
HES APC
03_IMV_treatment
X56
OPCS
Intubation of trachea
confirmed
HES APC
03_IMV_treatment
E85.1
OPCS
Invasive ventilation
confirmed
SUS
03_IMV_treatment
X56
OPCS
Intubation of trachea
confirmed
SUS
Primary care EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
03_NIV_treatment
E85.2
OPCS
Non-invasive ventilation NEC
confirmed
HES APC
03_NIV_treatment
E85.6
OPCS
Continuous positive airway pressure
confirmed
HES APC
03_NIV_treatment
E85.2
OPCS
Non-invasive ventilation NEC
confirmed
SUS
03_NIV_treatment
E85.6
OPCS
Continuous positive airway pressure
confirmed
SUS
Hospitalization EHR England
covid_phenotype
clinical_code
terminology
description
covid_status
source
04_Fatal_with_covid_diagnosis
U071
ICD10
confirmed
deaths
04_Fatal_with_covid_diagnosis
U072
ICD10
suspected
deaths