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This is a non-core endpoint: only basic statistics are computed.

Smallpox

EFO Endpoint Browser

AB1_SMALLPOS

Endpoint definition

↥

Endpoint definition steps

FinnGen

Phenotype data

520210

1. Apply sex-specific rule

None

520210

2. Check conditions

None

520210

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

Registry filters:

  • Hospital discharge: ICD-10 — B03
  • Hospital discharge: ICD-9 — 05[0]
  • Hospital discharge: ICD-8 — 05[0]
  • Cause of death: ICD-10 — B03
  • Cause of death: ICD-9 — 05[0]
  • Cause of death: ICD-8 — 05[0]

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

8

4. Check minimum number of events

None

8

5. Include endpoints

None

8

6. Filter based on genotype QC (FinnGen only)

8

Control definitions (FinnGen only)

Control exclude
AB1_VIRAL_SKIN_MUCOUS_MEMBRANE

Extra metadata

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

Case counts by codes

↥

FinnGen case counts by registry codes:

Not enough data for upset plot.

Not enough data for upset table.

Summary Statistics

↥

-FinRegistry-

Key figures

All Female Male
Number of individuals
Whole population 107 50 56
Only index persons 84 41 43
Unadjusted period prevalence (%)
Whole population 0.00 0.00 0.00
Only index persons 0.00 0.00 0.00
Median age at first event (years)
Whole population 23.67 26.43 20.46
Only index persons 23.11 26.21 20.16

-FinnGen-

Key figures

All Female Male
Number of individuals 8 5 -
Unadjusted period prevalence (%) 0.00 0.00 -
Median age at first event (years) 26.37 30.09 -

-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

No data

-FinnGen-

Cumulative Incidence Function

Not a core endpoint, no data to show.

CodeWAS (R11)

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CodeWAS is a tool for exploring the associations between an endpoint and all of the medical codes and drug codes.

This is a new tool, please reach out using the contact form for feedback and improvement ideas.

First, a cohort is built by matching controls to the endpoint cases using year of birth and sex. Then, a Fisher test is done for all the medical codes and drug codes between the cases and controls of this cohort. Codes are reported in the table below if they have −log10(p-value) ≥ 6.

No data available

LabWAS

↥
OMOP Concept
People with measurements
Mean N measurements
Mean measured value
(ID) Name
N Cases
N Controls
OR
-log10(p)
cases
controls
cases
controls
unit
-log10(p)
N cases
N controls
0
26
0.00
1.01
0.0
2.9
—
—
—
0
0
0
27
0.00
1.00
0.0
2.0
—
18.3
—
0
21
0
24
0.00
1.00
0.0
3.8
—
31.7
—
0
17
0
21
0.00
0.72
0.0
4.7
—
—
—
0
0
0
21
0.00
0.72
0.0
2.0
—
0.1
—
0
15
0
15
0.00
0.47
0.0
8.3
—
—
—
0
0
0
15
0.00
0.47
0.0
2.5
—
—
—
0
0
0
11
0.00
0.23
0.0
1.7
—
—
—
0
0
0
10
0.00
0.23
0.0
1.3
—
—
—
0
0
0
12
0.00
0.23
0.0
5.3
—
—
—
0
0
0
12
0.00
0.23
0.0
1.7
—
—
—
0
0
0
13
0.00
0.22
0.0
1.6
—
—
—
0
0
0
8
0.00
0.00
0.0
2.9
—
—
—
0
0
0
5
0.00
0.00
0.0
1.6
—
—
—
0
0
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
0
6
0.00
0.00
0.0
3.8
—
0.8
—
0
6
0
7
0.00
0.00
0.0
1.6
—
—
—
0
0
0
6
0.00
0.00
0.0
4.0
—
8.5
—
0
6
0
7
0.00
0.00
0.0
1.6
—
—
—
0
0
0
6
0.00
0.00
0.0
2.0
—
0.2
—
0
6
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
0
5
0.00
0.00
0.0
4.2
—
94.7
—
0
5
0
5
0.00
0.00
0.0
2.8
—
1.7
—
0
5
0
5
0.00
0.00
0.0
4.0
—
1.3
—
0
5
0
8
0.00
0.00
0.0
1.3
—
—
—
0
0
0
7
0.00
0.00
0.0
1.4
—
—
—
0
0
0
9
0.00
0.00
0.0
1.1
—
66.8
—
0
9
8
73
+∞
0.00
8.6
13.4
—
—
—
0
0
0
7
0.00
0.00
0.0
3.7
—
2.7
—
0
7
0
5
0.00
0.00
0.0
1.6
—
10.4
—
0
5
0
6
0.00
0.00
0.0
1.3
—
—
—
0
0
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0

Mortality – FinRegistry

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Association

Association between endpoint AB1_SMALLPOS and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have AB1_SMALLPOS.

N-year risk Females Males
1 No data No data
5 No data No data
10 No data No data
15 No data No data
20 No data No data

Relationships between endpoints

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Index endpoint: AB1_SMALLPOS – Smallpox

GWS hits: -

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