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Viral pneumonia (unknown virus, not influenza)

DOID EFO Endpoint Browser PheWeb

VIRALPNEUMONAS

Endpoint definition

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Endpoint definition steps

FinnGen

Phenotype data

473681

1. Apply sex-specific rule

None

473681

2. Check conditions

None

473681

3. Check pre-conditions, main-only, mode, registry filters

Registry filters:

  • Hospital discharge: ICD-10 — J12.8, J12.9
  • Hospital discharge: ICD-9 — 480
  • Hospital discharge: ICD-8 — 480
  • Hospital discharge: excluded ICD-9 — 480[0-2]
  • Cause of death: ICD-10 — J12.8, J12.9
  • Cause of death: ICD-9 — 480
  • Cause of death: ICD-8 — 480
  • Cause of death: excluded ICD-9 — 480[0-2]

2 out of 7 registries used, show all original rules.

2329

4. Check minimum number of events

None

2329

5. Include endpoints

None

2329

6. Filter based on genotype QC (FinnGen only)

2174

Control definitions (FinnGen only)

Control exclude ASTHMA_PNEUMONIA

Extra metadata

First used in FinnGen datafreeze DF2

Case counts by codes

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FinnGen case counts by registry codes:

generic upset plot

Upset plot

Full data table

Summary Statistics

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-FinRegistry-

Key figures

All Female Male
Number of individuals
Whole population 22206 9354 12641
Only index persons 17921 7501 10420
Unadjusted period prevalence (%)
Whole population 0.32 0.27 0.35
Only index persons 0.35 0.28 0.40
Median age at first event (years)
Whole population 26.87 35.15 20.24
Only index persons 21.48 24.06 19.62

-FinnGen-

Key figures

All Female Male
Number of individuals 2174 1028 1146
Unadjusted period prevalence (%) 0.49 0.40 0.58
Median age at first event (years) 50.40 47.84 52.70

-FinRegistry-

Age distribution of first events

-FinnGen-

Age distribution of first events

-FinRegistry-

Year distribution of first events

-FinnGen-

Year distribution of first events

-FinRegistry-

Cumulative Incidence Function

-FinnGen-

Cumulative Incidence Function

Mortality – FinRegistry

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Association

Association between endpoint VIRALPNEUMONAS and mortality.

Females

Parameter HR [95% CI] p-value
VIRALPNEUMONAS 2.255 [1.88, 2.71] < 0.001
Birth year 1.0 [0.99, 1.01] 0.902

During the follow-up period (1.1.1998 — 31.12.2019), 827 out of 3529 females with VIRALPNEUMONAS died.

Males

Parameter HR [95% CI] p-value
VIRALPNEUMONAS 2.692 [2.21, 3.28] < 0.001
Birth year 0.989 [0.98, 1.0] 0.023

During the follow-up period (1.1.1998 — 31.12.2019), 901 out of 3975 males with VIRALPNEUMONAS died.

Mortality risk

Mortality risk for people of age

years, who have VIRALPNEUMONAS.

N-year risk Females Males
1 0.203% 0.548%
5 1.273% 3.523%
10 3.244% 8.66%
15 6.991% 15.832%
20 12.016% 25.6%

Relationships between endpoints

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Index endpoint: VIRALPNEUMONAS – Viral pneumonia (unknown virus, not influenza)

GWS hits: -

Endpoint
Case Overlap
Survival Analysis
Genetic Correlations
Genetic Signals
N (Jaccard index)
HR [CI]
Extremity
rg [CI]
Extremity
Hits
Coloc Hits
FinRegistry
FinnGen
FinRegistry
FinnGen
FinnGen
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