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Pneumocystosis

EFO Endpoint Browser PheWeb

AB1_PNEUMOCYSTOSIS

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 — B59
  • Hospital discharge: ICD-9 — 1363
  • Hospital discharge: ICD-8 — 13601
  • Cause of death: ICD-10 — B59
  • Cause of death: ICD-9 — 1363
  • Cause of death: ICD-8 — 13601

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

446

4. Check minimum number of events

None

446

5. Include endpoints

None

446

6. Filter based on genotype QC (FinnGen only)

433

Control definitions (FinnGen only)

Control exclude AB1_PROTOZOAL

Extra metadata

Level in the ICD hierarchy 3
First used in FinnGen datafreeze DF5

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 2264 930 1311
Only index persons 1857 788 1069
Unadjusted period prevalence (%)
Whole population 0.03 0.03 0.04
Only index persons 0.04 0.03 0.04
Median age at first event (years)
Whole population 65.64 66.13 65.45
Only index persons 67.08 67.10 67.08

-FinnGen-

Key figures

All Female Male
Number of individuals 433 196 237
Unadjusted period prevalence (%) 0.10 0.08 0.12
Median age at first event (years) 67.32 66.28 68.19

-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 AB1_PNEUMOCYSTOSIS and mortality.

Females

Parameter HR [95% CI] p-value
AB1_PNEUMOCYSTOSIS 10.609 [7.15, 15.75] < 0.001
Birth year 1.003 [0.99, 1.01] 0.449

During the follow-up period (1.1.1998 — 31.12.2019), 296 out of 647 females with AB1_PNEUMOCYSTOSIS died.

Males

Parameter HR [95% CI] p-value
AB1_PNEUMOCYSTOSIS 5.697 [4.03, 8.05] < 0.001
Birth year 0.985 [0.98, 0.99] 0.002

During the follow-up period (1.1.1998 — 31.12.2019), 404 out of 853 males with AB1_PNEUMOCYSTOSIS died.

Mortality risk

Mortality risk for people of age

years, who have AB1_PNEUMOCYSTOSIS.

N-year risk Females Males
1 1.668% 1.058%
5 7.866% 6.012%
10 18.753% 14.416%
15 32.72% 25.087%
20 51.67% 40.573%

Relationships between endpoints

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Index endpoint: AB1_PNEUMOCYSTOSIS – Pneumocystosis

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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