This is a non-core endpoint: only basic statistics are computed.
Benign neoplasm: Liver/bile ducts (ICD-9)
CD2_BENIGN_LIVER_BILE_9_EXALLC
No definition available.
Endpoint definition
↥
Endpoint definition steps |
FinnGen |
|---|---|
Phenotype data |
|
1. Apply sex-specific ruleNone |
- |
2. Check conditionsNone |
|
3. Check pre-conditions, main-only, mode, registry filtersRegistry filters:
2 out of 7 registries used, show all original rules. |
- |
4. Check minimum number of eventsNone |
- |
5. Include endpointsNone |
- |
6. Filter based on genotype QC (FinnGen only)None |
- |
Control definitions (FinnGen only)
- Control exclude
- C3_CANCER, C3_CANCER_WIDE
Extra metadata
- Level in the ICD hierarchy
- 4
- First used in FinnGen datafreeze
- DF2
Similar endpoints
↥List of similar endpoints to
Benign neoplasm: Liver/bile ducts (ICD-9)
based on the number of shared cases.
Similar with more cases:
- Benign neoplasm: Liver/bile ducts (ICD-9)
- Benign neoplasm: Small intestine
- Benign neoplasm: Small intestine
- Benign neoplasm of other and ill-defined parts of digestive system
- Benign neoplasm of other and ill-defined parts of digestive system
Similar with less cases:
Case counts by codes
↥FinnGen case counts by registry codes:
No upset plot: script not run.
No upset table: script not run.
Summary Statistics
↥-FinRegistry-
This endpoint is excluded from FinRegistry analyses (omitted endpoint).
-FinnGen-
Key figures
| All | Female | Male | |
|---|---|---|---|
| Number of individuals | 33 | 25 | 8 |
| Unadjusted period prevalence (%) | 0.01 | 0.01 | 0.00 |
| Median age at first event (years) | 39.98 | 37.45 | 47.88 |
-FinnGen-
Age distribution of first events
-FinnGen-
Year distribution of first events
-FinnGen-
Cumulative Incidence Function
Not a core endpoint, no data to show.
CodeWAS (R11)
↥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
unit
cases
controls
-log10(p)
N cases
N controls
(3026008) Bacteria identified in Urine by Culture
17
85
3.06
2.48
3.5
2.9
—
—
—
0
0
(3029287) Urinalysis microscopic panel [#/volume] - Urine by Automated count
16
80
2.94
2.30
3.5
2.9
—
—
—
0
0
(3027273) Bicarbonate [Moles/volume] in Venous blood
5
13
4.33
1.78
2.6
3.4
mmol/l
24.7
25.8
—
5
13
(3004119) Hemoglobin [Mass/volume] in Venous blood
6
19
3.62
1.75
2.0
3.3
g/l
117.0
124.3
—
6
19
(3044640) Blood type and Crossmatch panel - Blood
12
59
2.62
1.69
2.3
2.0
—
—
—
0
0
(3006140) Bilirubin.total [Moles/volume] in Serum or Plasma
20
127
2.46
1.65
5.5
3.9
umol/l
27.7
11.2
0.44
20
119
(36304419) Bacteria [Presence] in Urine
12
63
2.42
1.46
3.5
2.7
—
—
—
0
0
(3008152) Bicarbonate [Moles/volume] in Arterial blood
5
17
3.27
1.41
9.2
5.0
mmol/l
24.3
25.4
—
5
17
(3015736) pH of Urine
15
89
2.26
1.38
3.5
3.6
—
—
—
0
0
(3021960) Folate [Moles/volume] in Serum or Plasma
12
65
2.33
1.35
1.2
1.7
nmol/l
17.9
23.1
0.41
12
54
(3002256) Pathology report gross observation
5
18
3.08
1.33
1.0
1.1
—
—
—
0
0
(3024354) Oxygen [Partial pressure] in Venous blood
5
18
3.08
1.33
3.0
4.2
kpa
5.5
4.0
—
5
18
(3002582) Erythrocytes [#/volume] in Urine
13
74
2.25
1.30
3.3
3.0
e6/l
34.9
12.5
—
8
58
(3042936) Bacteria identified in Isolate by Culture
8
38
2.45
1.29
1.1
1.4
—
—
—
0
0
(3021447) Carbon dioxide [Partial pressure] in Venous blood
6
26
2.59
1.25
4.2
7.1
kpa
5.0
6.3
—
6
26
(3012544) pH of Venous blood
6
26
2.59
1.25
4.2
7.0
—
—
—
0
0
(3018095) Leukocytes [#/volume] in Urine
14
85
2.12
1.19
3.6
3.5
e6/l
552.9
74.2
—
8
63
(3013512) EKG study
12
69
2.16
1.16
2.0
3.6
—
—
—
0
0
(3000991) Gas panel - Venous blood
5
21
2.62
1.13
4.8
11.9
—
—
—
0
0
(46236098) ABO and Rh group [Type] in Blood by Confirmatory method
9
49
2.14
1.10
2.2
2.0
—
—
—
0
0
(3001079) Blood group antibody screen [Presence] in Serum or Plasma
15
97
2.00
1.06
3.4
3.6
—
—
—
0
0
(3030467) Casts [#/volume] in Urine by Automated count
11
67
1.96
0.89
3.6
3.2
e6/l
0.8
0.6
—
6
52
(3020059) Calcium [Moles/volume] corrected for albumin in Serum or Plasma
8
47
1.92
0.88
2.4
2.3
mmol/l
2.5
2.4
—
8
39
(3033658) Prothrombin time (PT) actual/Normal
9
54
1.91
0.84
4.1
3.3
%
90.3
90.5
—
9
54
(3000494) Fungus identified in Specimen by Culture
6
33
2.00
0.83
1.3
1.6
—
—
—
0
0
(3002173) Hemoglobin [Mass/volume] in Arterial blood
5
23
2.38
0.80
5.8
6.5
g/l
121.2
117.2
—
5
23
(3019800) Troponin T.cardiac [Mass/volume] in Serum or Plasma
15
105
1.79
0.79
4.4
3.8
ng/l
29.9
25.7
—
9
66
(3016502) Oxygen saturation in Arterial blood
5
24
2.27
0.78
5.8
6.5
%
96.9
94.4
—
5
24
(40763086) Leukocyte esterase [Presence] in Urine by Automated test strip
13
88
1.79
0.75
3.6
3.6
—
—
—
0
0
(3018418) pH of Serum or Plasma
11
71
1.82
0.74
6.7
4.1
—
7.4
—
0
6
(40768804) Tissue Pathology biopsy report
14
99
1.72
0.69
2.1
1.5
—
—
—
0
0
(3023368) Bacteria identified in Blood by Culture
10
65
1.77
0.64
2.5
3.0
—
—
—
0
0
(3022621) pH of Urine by Test strip
0
22
0.00
0.62
0.0
2.0
—
—
—
0
0
(40760892) CBC W Ordered Manual Differential panel - Blood
7
47
1.62
0.52
1.6
4.9
—
—
—
0
0
(3037467) Urinalysis macro (dipstick) panel - Urine
21
174
1.57
0.51
3.9
3.9
—
—
—
0
0
(3041096) Erythrocytes [Presence] in Urine by Automated
9
66
1.50
0.44
1.9
3.0
—
—
—
0
0
(40758558) Short blood count panel - Blood
7
55
1.34
0.32
6.4
5.8
—
—
—
0
0
(3021601) Nitrite [Presence] in Urine by Test strip
14
115
1.38
0.30
5.6
4.7
—
0.0
—
0
19
(40768797) Stomach Pathology biopsy report
5
41
1.26
0.23
1.0
1.1
—
—
—
0
0
(3029511) Human papilloma virus DNA [Presence] in Specimen by NAA with probe detection
0
11
0.00
0.22
0.0
1.0
—
—
—
0
0
(3036086) Jo-1 extractable nuclear Ab [Units/volume] in Serum by Immunoassay
0
11
0.00
0.22
0.0
1.1
—
—
—
0
0
(3046870) Tissue transglutaminase IgG Ab [Units/volume] in Serum
0
10
0.00
0.22
0.0
1.1
—
—
—
0
0
(3024950) Chlamydia trachomatis DNA [Presence] in Urine by NAA with probe detection
0
10
0.00
0.22
0.0
1.4
—
—
—
0
0
(3014051) Protein [Presence] in Urine by Test strip
0
10
0.00
0.22
0.0
1.8
—
—
—
0
0
(3025941) Bacteria identified in Stool by Culture
0
13
0.00
0.21
0.0
1.2
—
—
—
0
0
(3013139) Helicobacter pylori Ag [Presence] in Stool
0
13
0.00
0.21
0.0
1.1
—
—
—
0
0
(3045414) Leukocytes [Presence] in Urine
0
13
0.00
0.21
0.0
1.8
—
—
—
0
0
(3011397) Hemoglobin [Presence] in Urine by Test strip
7
56
1.32
0.20
5.3
3.5
—
—
—
0
0
(40761511) CBC panel - Blood by Automated count
28
266
1.35
0.19
17.3
11.1
—
—
—
0
0
(42870588) Differential panel, method unspecified - Blood
10
83
1.29
0.18
3.0
5.6
—
—
—
0
0
(1761868) Lipid panel - Serum or Plasma
6
74
0.77
0.18
3.3
3.2
—
—
—
0
0
(40764999) Glomerular filtration rate/1.73 sq M.predicted [Volume Rate/Area] in Serum, Plasma or Blood by Creatinine-based formula (CKD-EPI)
25
236
1.24
0.16
15.8
11.5
ml/min/173m2
69.6
74.2
0.28
16
178
(3026493) Urate [Moles/volume] in Serum or Plasma
6
57
1.06
0.09
2.8
2.3
umol/l
349.0
326.0
—
6
49
(3009542) Hematocrit [Volume Fraction] of Blood
22
231
0.86
0.07
22.5
14.1
%
40.5
39.7
0.25
12
163
(3044889) 12 lead EKG panel
18
175
1.06
0.00
6.4
3.9
—
—
—
0
0
(706163) SARS-CoV-2 (COVID-19) RNA [Presence] in Respiratory system specimen by NAA with probe detection
13
134
0.95
0.00
3.3
2.6
—
—
—
0
0
(3008898) HLA-B27 [Presence]
0
6
0.00
0.00
0.0
1.3
—
—
—
0
0
(3030905) Polymorphonuclear cells [#/volume] in Blood
0
8
0.00
0.00
0.0
1.4
—
5.6
—
0
8
(36032419) SARS-CoV-2 (COVID-19) Ag [Presence] in Upper respiratory specimen by Immunoassay
0
9
0.00
0.00
0.0
1.3
—
—
—
0
0
(3003510) Neisseria gonorrhoeae DNA [Presence] in Urine by NAA with probe detection
0
9
0.00
0.00
0.0
1.2
—
—
—
0
0
(36305247) Microscopic observation [Identifier] in Isolate by Gram stain
0
8
0.00
0.00
0.0
1.5
—
—
—
0
0
(3032035) Polymorphonuclear cells/100 leukocytes in Blood
0
8
0.00
0.00
0.0
3.3
—
64.8
—
0
8
(3043362) Influenza virus B Ag [Presence] in Nasopharynx by Immunoassay
0
6
0.00
0.00
0.0
1.2
—
—
—
0
0
(3046524) Influenza virus A Ag [Presence] in Nasopharynx by Immunoassay
0
6
0.00
0.00
0.0
1.2
—
—
—
0
0
(3005702) Mycobacterium sp identified in Specimen by Organism specific culture
0
6
0.00
0.00
0.0
1.5
—
—
—
0
0
(3004616) Nuclear Ab [Presence] in Serum
0
8
0.00
0.00
0.0
1.0
—
—
—
0
0
(3008909) Norovirus RNA [Presence] in Stool by NAA with probe detection
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
(3027545) Mycoplasma pneumoniae Ab [Presence] in Serum by Immunoassay
0
6
0.00
0.00
0.0
1.3
—
—
—
0
0
(40766048) U1 small nuclear ribonucleoprotein 70kD Ab [Units/volume] in Serum by Immunoassay
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
(3049717) Cytology report of Urine Cyto stain
0
6
0.00
0.00
0.0
2.5
—
—
—
0
0
(3010566) Parathyrin.intact [Moles/volume] in Serum or Plasma
0
6
0.00
0.00
0.0
1.8
—
—
—
0
0
(40769539) Bacteria identified based on 16S rRNA gene [Identifier] in Specimen by Sequencing
0
6
0.00
0.00
0.0
1.2
—
—
—
0
0
(40758310) Human epididymis protein 4 [Moles/volume] in Serum or Plasma
0
6
0.00
0.00
0.0
1.0
—
76.7
—
0
6
(37019628) Gastrointestinal bacterial pathogens panel - Stool by NAA with probe detection
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
(44816559) Phosphatidylethanol [Mass/volume] in Blood
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
(3007566) Smooth muscle Ab [Titer] in Serum
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
(4094501)
0
7
0.00
0.00
0.0
1.1
—
—
—
0
0
(3024891) Influenza virus A+B Ag [Presence] in Specimen
0
5
0.00
0.00
0.0
1.2
—
—
—
0
0
(3011648) Oxygen content in Venous blood
0
5
0.00
0.00
0.0
2.6
—
10.6
—
0
5
(3053028) Streptococcus sp identified in Specimen by Organism specific culture
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
(3024403) Complement+Immunoglobulin [Units/volume] in Red Blood Cells
0
7
0.00
0.00
0.0
2.4
—
—
—
0
0
(3014973) Borrelia burgdorferi IgM Ab [Units/volume] in Cerebral spinal fluid
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
(3004248) Sex hormone binding globulin [Moles/volume] in Serum or Plasma
0
5
0.00
0.00
0.0
1.4
—
35.0
—
0
5
(3010521) Mycoplasma pneumoniae IgM Ab [Presence] in Serum by Immunoassay
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
(3042631) Mycobacterium sp identified in Specimen
0
5
0.00
0.00
0.0
5.4
—
—
—
0
0
(3006257) Acetylcholine receptor Ab [Moles/volume] in Serum
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
(1616796) Gas panel - Central venous blood
0
5
0.00
0.00
0.0
1.6
—
—
—
0
0
(3010380) Borrelia burgdorferi IgG Ab [Units/volume] in Cerebral spinal fluid
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
Mortality – FinRegistry
↥This endpoint is excluded from FinRegistry analyses (omitted endpoint).
Relationships between endpoints
↥Index endpoint: CD2_BENIGN_LIVER_BILE_9_EXALLC – Benign neoplasm: Liver/bile ducts (ICD-9)
GWS hits: -
This endpoint is excluded from FinRegistry analyses (omitted endpoint).