No definition available.
Endpoint definition
↥Report an error or suggest an improvement for this endpoint codes
Endpoint definition steps |
FinnGen |
|---|---|
Phenotype data |
519870 |
1. Apply sex-specific ruleNone |
519870 |
2. Check conditionsNone |
519870 |
3. Check pre-conditions, main-only, mode, registry filtersRegistry filters:
3 out of 7 registries used, show all original rules. |
149 |
4. Check minimum number of eventsNone |
149 |
5. Include endpointsNone |
149 |
6. Filter based on genotype QC (FinnGen only) |
129 |
Control definitions (FinnGen only)
- Control exclude
- AB1_SEXUAL_TRANSMISSION
Extra metadata
- Level in the ICD hierarchy
- 4
- First used in FinnGen datafreeze
- DF13
Similar endpoints
↥List of similar endpoints to
Other and unspecified syphilis, including avohilmo
based on the number of shared cases.
Similar with more cases:
- Infections with a predominantly sexual mode of transmission, including avohilmo
- Certain infectious and parasitic diseases, including avohilmo
- Any prescribed medicine buy
- Any event in hilmo or specialist outpatient
Similar with less cases:
Case counts by codes
↥Summary Statistics
↥-FinRegistry-
This endpoint is excluded (different definition than used in FinnGen).
-FinnGen-
Key figures
| All | Female | Male | |
|---|---|---|---|
| Number of individuals | 129 | 31 | 98 |
| Unadjusted period prevalence (%) | 0.04 | 0.01 | 0.04 |
| Median age at first event (years) | 45.22 | 39.60 | 46.99 |
-FinnGen-
Age distribution of first events
-FinnGen-
Year distribution of first events
-FinnGen-
Cumulative Incidence Function
CodeWAS
↥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.
Matched cohort
- Matched cases
- 149
- Matched controls
- 1490
TimeCodeWAS
↥TODO / Current known limitations:
- Only showing the top 500 codes, because showing all (sometimes 20k) makes the page too slow.
- Legend / how to read the glyphs.
- Proper column names.
- Show details (e.g. Fisher or Chi-square test, N cases and N controls) when clicking on a row.
- Explanation on the underlying data / how the TimeCodeWAS is done (e.g. matched cases / controls, eligibility).
- Download CSV not working.
- No filters and sorters.
- Limited amount of endpoints with TimeCodeWAS data.
- Cross-links to Risteys lab test pages for lab test codes.
B24 (45547443)
26009-1 (3019539)
B23.1 (45532868)
A53.9 (45600422)
698-1 (3028334)
50690-7 (3029634)
A53.0 (45532844)
A56.3 (45542533)
16128-1 (3017143)
24467-3 (3028167)
44 (38004484)
171128005 (4064905)
WW200 (2001310599)
8123-2 (3014037)
16933-4 (3021879)
50373000 (4177340)
60621009 (4245997)
21 (8717)
22 (8756)
207NI0002X (38003841)
OP (9202)
24111-7 (3011371)
21416-3 (3003510)
14879-1 (3003458)
21613-5 (3006093)
6357-8 (3024950)
69738-3 (42870588)
26511-6 (3018010)
26485-3 (3019069)
30180-4 (3022096)
26450-7 (3006504)
26478-8 (3002030)
24357-6 (3037467)
26444-0 (3006315)
26484-6 (3001604)
26474-7 (3019198)
55429-5 (40758558)
26449-9 (3013115)
22587-0 (3019832)
715-3 (3021589)
OMOP4822461 (32036)
751-8 (3013650)
ER (9203)
1920-8 (3013721)
251B00000X (38004193)
14631-6 (3006140)
1805-1 (3016417)
75622-1 (46235355)
WYA30 (2001310874)
OMOP5117446 (33004)
J01MA02 (21603009)
LabWAS
↥Mortality – FinRegistry
↥This endpoint is excluded (different definition than used in FinnGen).
Relationships between endpoints
↥Index endpoint: AB1_SYPHILIS_NOS_WIDE – Other and unspecified syphilis, including avohilmo
GWS hits: -
This endpoint is excluded (different definition than used in FinnGen).