Lung Cancer Cohort Example
type: Dataset
description: Synthetic OMOP-based cohort for lung cancer
keyword: lung cancer
keyword: lung carcinoma
keyword: thoracic oncology
alternative: LC
alternative: NSCLC
alternative: SCLC
type: SYNTHETIC_DATA
theme: Health
access rights: NON PUBLIC
health category: Lung Cancer
modified: 2024-06-25
sample: Distribution
  access URL: https://lygatureprojectplaza.sharepoint.com/sites/IDERHA/Shared%20Documents/Forms/AllItems.aspx
  applicable legislation: oj
has purpose: ResearchAndDevelopment
publisher: Fundación para la Gestión de la Investigación en Salud de Sevilla
provenance: ProvenanceStatement
  description: The Lung Cancer OMOP CDM dataset was derived from routinely collected electronic health records and hospital cancer registry data from three tertiary hospitals and one regional cancer center in Country X, covering the period 2016-01-01 to 2024-12-31. Source systems included inpatient and outpatient EHR modules (diagnoses, procedures, medications, labs, pathology, imaging summaries) and the institutional tumor registry. Data were transformed to OMOP CDM v5.4 using a documented ETL pipeline (SQL + Python) with concept mapping to SNOMED CT (YYYY-MM release), RxNorm (YYYY-MM), LOINC (YYYY-MM), and ICD-10-CM (2024). Data quality checks were performed with OHDSI Achilles and the Data Quality Dashboard (all critical checks passed; non-critical conformance warnings documented).
healththeme: http://13.81.34.152:1101/resource/authority/health-theme/CANCER_DISEASE
hdab: Health Data Access Body 1
  type: Agent
  contact point: UniversityofLuxembourg
distribution: distributions
contact point: Kind
  has URL: https://fisevi.com/
  fn: Dataset contact
applicable legislation: oj
language: ENG
temporal: PeriodOfTime
  start date: 1970-01-01
  end date: 2023-12-30
spatial: andalucia.html
version: V1.4
rights: All rights reserved
has personal data: https://w3id.org/dpv/pd#Age
has personal data: https://w3id.org/dpv/pd#Gender
has personal data: https://w3id.org/dpv/pd#Identifier
has legal basis: https://w3id.org/dpv/dpv-gdpr#A6-1-a
has legal basis: https://w3id.org/dpv/dpv-gdpr#A9-2-j
has data subject: https://w3id.org/dpv#Patient
has data subject: https://w3id.org/dpv#DataSubject
max typical age: 72
min typical age: 3
number of unique individuals: 2913
number of records: 84007
age median: 37
number of studies: 0
number of series: 0
number of persons: 2913
number of persons by gender:
  measure type: sdmx-measure:obsValue
  structure: http://IDERHA.org/structure/gender
  observation:
    obs value: 2302
    gender: male
  observation:
    obs value: 611
    gender: female
number of persons by year of birth:
  measure type: sdmx-measure:obsValue
  structure: http://IDERHA.org/structure/year_of_birth
  observation:
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    year of birth: 1954
  observation:
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    year of birth: 1955
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    year of birth: 1956
  observation:
    obs value: 3
    year of birth: 1957
  observation:
    obs value: 1
    year of birth: 1958
  observation:
    obs value: 2
    year of birth: 1959
  observation:
    obs value: 2
    year of birth: 1960
  observation:
    obs value: 2
    year of birth: 1961
  observation:
    obs value: 5
    year of birth: 1962
  observation:
    obs value: 4
    year of birth: 1963
  observation:
    obs value: 5
    year of birth: 1964
  observation:
    obs value: 3
    year of birth: 1965
  observation:
    obs value: 7
    year of birth: 1966
  observation:
    obs value: 15
    year of birth: 1967
  observation:
    obs value: 10
    year of birth: 1968
  observation:
    obs value: 10
    year of birth: 1969
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    year of birth: 1970
  observation:
    obs value: 33
    year of birth: 1971
  observation:
    obs value: 28
    year of birth: 1972
  observation:
    obs value: 30
    year of birth: 1973
  observation:
    obs value: 25
    year of birth: 1974
  observation:
    obs value: 42
    year of birth: 1975
  observation:
    obs value: 53
    year of birth: 1976
  observation:
    obs value: 55
    year of birth: 1977
  observation:
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    year of birth: 1978
  observation:
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    year of birth: 1979
  observation:
    obs value: 86
    year of birth: 1980
  observation:
    obs value: 76
    year of birth: 1981
  observation:
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    year of birth: 1982
  observation:
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    year of birth: 1983
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    year of birth: 1984
  observation:
    obs value: 98
    year of birth: 1985
  observation:
    obs value: 108
    year of birth: 1986
  observation:
    obs value: 120
    year of birth: 1987
  observation:
    obs value: 93
    year of birth: 1988
  observation:
    obs value: 124
    year of birth: 1989
  observation:
    obs value: 116
    year of birth: 1990
  observation:
    obs value: 95
    year of birth: 1991
  observation:
    obs value: 93
    year of birth: 1992
  observation:
    obs value: 104
    year of birth: 1993
  observation:
    obs value: 93
    year of birth: 1994
  observation:
    obs value: 79
    year of birth: 1995
  observation:
    obs value: 79
    year of birth: 1996
  observation:
    obs value: 90
    year of birth: 1997
  observation:
    obs value: 86
    year of birth: 1998
  observation:
    obs value: 72
    year of birth: 1999
cdm field: 97.19
cdm table: 93.55
is required: 37.93
cdm datatype: 33.5
is primary key: 34.78
is foreign key: 20.86
fk domain: 48.84
fk class: 33.33
is standard valid concept: 9.38
measure person completeness: 50
measure value completeness: 44.01
standard concept record completeness: 54.17
source concept record completeness: 30.77
source value completeness: 34.38
plausible value low: 51.47
plausible value high: 47.54
plausible temporal after: 41.18
plausible during life: 64.71
plausible gender: 4.18

SYNTHETIC_DATA
type: Concept

Health
type: Concept

Lung Cancer
type: Concept

Fundación para la Gestión de la Investigación en Salud de Sevilla
type: Agent
contact point: ContactPoint
  fn: Innovation & Data Analysis Unit, Hospital Universitario Virgen Macarena (HUVM)

IDERHA Data Catalog
type: Catalogue
description: IDERHA Data Catalog
publisher: IDERHA Data catalog
applicable legislation: oj

IDERHA Data catalog
type: Agent

Lung Cancer Prediction Study
type: Study
acronym: LCPS
description: Lung Cancer Study
keywords: LC
funded by: IDERHA
agent: IDERHA
project website: https://www.iderha.org/

IDERHA
type: Agent

obs value: 75
year of birth: 2000

obs value: 60
year of birth: 2001

obs value: 60
year of birth: 2002

obs value: 44
year of birth: 2003

obs value: 53
year of birth: 2004

obs value: 31
year of birth: 2005

obs value: 38
year of birth: 2006

obs value: 24
year of birth: 2007

obs value: 22
year of birth: 2008

obs value: 27
year of birth: 2009

obs value: 19
year of birth: 2010

obs value: 15
year of birth: 2011

obs value: 11
year of birth: 2012

obs value: 12
year of birth: 2013

obs value: 5
year of birth: 2014

obs value: 5
year of birth: 2015

obs value: 4
year of birth: 2016

obs value: 1
year of birth: 2017

obs value: 3
year of birth: 2018

obs value: 4
year of birth: 2019

obs value: 3
year of birth: 2020

obs value: 1
year of birth: 2021

obs value: 1
year of birth: 2023

measure type: sdmx-measure:obsValue
structure: http://IDERHA.org/structure/race
observation:
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  race: other

measure type: sdmx-measure:obsValue
structure: http://IDERHA.org/structure/ethnicity
observation:
  obs value: 2913
  ethnicity: unknown

measure type: sdmx-measure:obsValue
structure: http://IDERHA.org/structure/visit_concept_id
observation:
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measure type: sdmx-measure:obsValue
structure: http://IDERHA.org/structure/visit_concept_id
observation:
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observation:
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observation:
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measure type: sdmx-measure:obsValue
structure: http://IDERHA.org/structure/condition_concept_id
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