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Pneumonia due to Streptococcus pneumoniae

DOID EFO Endpoint Browser PheWeb

J10_PNEUMOPNEUMO

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 — J13
  • Hospital discharge: ICD-9 — 481
  • Hospital discharge: ICD-8 — 48199
  • Cause of death: ICD-10 — J13
  • Cause of death: ICD-9 — 481
  • Cause of death: ICD-8 — 48199

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

1515

4. Check minimum number of events

None

1515

5. Include endpoints

None

1515

6. Filter based on genotype QC (FinnGen only)

1451

Control definitions (FinnGen only)

Control exclude J10_INFLUPNEU

Extra metadata

Level in the ICD hierarchy 4
First used in FinnGen datafreeze DF2
Parent code in ICD-10 J09-J18
Name in latin Pneumonia a Streptococco pneumoniae

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 18491 7292 10991
Only index persons 14115 5899 8216
Unadjusted period prevalence (%)
Whole population 0.27 0.21 0.31
Only index persons 0.27 0.22 0.31
Median age at first event (years)
Whole population 50.75 54.75 47.87
Only index persons 44.56 49.26 41.19

-FinnGen-

Key figures

All Female Male
Number of individuals 1451 590 861
Unadjusted period prevalence (%) 0.35 0.23 0.43
Median age at first event (years) 54.80 51.46 57.09

-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 J10_PNEUMOPNEUMO and mortality.

Females

Parameter HR [95% CI] p-value
J10_PNEUMOPNEUMO 2.366 [2.04, 2.74] < 0.001
Birth year 0.994 [0.99, 1.0] 0.19

During the follow-up period (1.1.1998 — 31.12.2019), 1121 out of 4384 females with J10_PNEUMOPNEUMO died.

Males

Parameter HR [95% CI] p-value
J10_PNEUMOPNEUMO 2.825 [2.45, 3.26] < 0.001
Birth year 0.99 [0.98, 1.0] 0.031

During the follow-up period (1.1.1998 — 31.12.2019), 1720 out of 5802 males with J10_PNEUMOPNEUMO died.

Mortality risk

Mortality risk for people of age

years, who have J10_PNEUMOPNEUMO.

N-year risk Females Males
1 0.207% 0.591%
5 1.481% 3.573%
10 3.593% 8.349%
15 6.483% 15.976%
20 11.707% 25.92%

Relationships between endpoints

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Index endpoint: J10_PNEUMOPNEUMO – Pneumonia due to Streptococcus pneumoniae

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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