Scarlet fever

AB1_SCARLET_FEVER

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 A38
  • Hospital discharge: ICD-9 03[4]
  • Hospital discharge: ICD-8 03[4]
  • Hospital discharge: excluded ICD-9 034[0]
  • Hospital discharge: excluded ICD-8 034[0]
  • Cause of death: ICD-10 A38
  • Cause of death: ICD-9 03[4]
  • Cause of death: ICD-8 03[4]
  • Cause of death: excluded ICD-9 034[0]
  • Cause of death: excluded ICD-8 034[0]

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

260

4. Check minimum number of events

None

260

5. Include endpoints

None

260

6. Filter based on genotype QC (FinnGen only)

260

Control definitions (FinnGen only)

Control exclude
AB1_OTHER_BACTERIAL

Extra metadata

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

Case counts by codes

FinnGen case counts by registry codes:

generic upset plot

Upset plot

Full data table

Summary Statistics

-FinRegistry-

Key figures

All Female Male
Number of individuals
Whole population 4075 1777 2286
Only index persons 3185 1380 1805
Unadjusted period prevalence (%)
Whole population 0.06 0.05 0.06
Only index persons 0.06 0.05 0.07
Median age at first event (years)
Whole population 7.01 6.65 7.16
Only index persons 7.59 7.19 7.90

-FinnGen-

Key figures

All Female Male
Number of individuals 260 145 115
Unadjusted period prevalence (%) 0.05 0.05 0.05
Median age at first event (years) 10.56 8.96 12.57

-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

No data

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.

Matched cohort

Matched cases
225
Matched controls
2251
Code
Vocabulary
Description
Odds Ratio
-log10(p)
N matched cases
N matched controls
03419
ICD-8 Finland
Streptococcal sore throat and scarlet fever, Scarlatina NUD
+∞
93.4
83
*
A38
ICD-10 Finland
Scarlet fever
212.5
62.5
62
*
03417
ICD-8 Finland
Streptococcal sore throat and scarlet fever, Scarlatina suspecta
+∞
40.9
38
*
0341A
ICD-9 Finland
Streptococcal sore throat and scarlatina, Scarlatina[SCARLATINA STREPTOCOCCUS BETAHAEMOLYTICUS,RYHMÄ-A]
+∞
12.6
12
*
0341X
ICD-9 Finland
Streptococcal sore throat and scarlatina, Scarlatina[SCARLATINA STREPTOCOCCUS BETAHAEMOLYTICUS,MUU]
+∞
11.6
11
*
A49.9
ICD-10 Finland
Bacterial infection, unspecified
29.7
10.9
14
5
03410
ICD-8 Finland
Streptococcal sore throat and scarlet fever, Scarlatina cum complicatione
+∞
7.3
7
*
A46
ICD-10 Finland
Erysipelas
6.0
6.6
17
30

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
57
302
2.14
5.55
4.1
3.1
—
—
—
0
0
14
36
4.05
5.05
1.9
3.6
3.8
3.7
e9/l
0.08
14
36
14
36
4.05
5.05
1.9
3.7
54.9
54.6
%
0.04
14
36
92
608
1.79
4.60
7.6
5.8
—
—
—
0
0
175
1397
1.77
4.44
8.2
6.2
76.4
75.3
u/l
0.13
165
1315
123
892
1.72
4.40
12.5
7.7
0.0
0.0
e9/l
0.80
103
735
82
533
1.79
4.29
6.1
5.5
1.1
1.1
inr
0.27
39
190
33
156
2.28
4.22
4.8
2.7
—
—
—
0
0
11
27
4.21
4.20
3.1
1.7
17.8
17.3
%
—
5
15
116
852
1.65
3.80
6.7
5.0
9.9
10.4
umol/l
0.28
107
817
90
621
1.69
3.74
6.4
3.9
36.9
37.6
g/l
0.57
80
597
49
290
1.85
3.43
1.5
1.4
146.7
603.8
titre
4.30
12
63
35
192
1.95
3.07
1.5
1.4
—
—
—
0
0
92
670
1.58
2.97
5.6
4.8
1.2
1.2
mmol/l
1.12
82
621
171
1442
1.54
2.76
5.0
3.5
8.3
8.2
mm/h
0.02
158
1361
35
201
1.86
2.69
1.5
1.9
—
—
—
0
0
74
524
1.58
2.66
2.0
2.3
53.3
56.0
u/l
0.36
63
496
34
197
1.84
2.55
1.6
1.4
—
—
—
0
0
69
488
1.56
2.48
5.2
2.9
0.0
0.0
estimate
0.50
26
176
65
455
1.57
2.44
1.5
1.7
—
—
—
0
0
124
1009
1.44
2.19
4.8
3.6
6.6
6.4
mmol/l
0.46
112
923
9
30
3.07
2.17
8.1
1.7
8.9
9.5
kpa
—
9
30
9
30
3.07
2.17
8.1
1.7
4.7
5.0
kpa
—
9
30
52
355
1.58
2.16
3.5
2.0
2.6
2.7
mg/l
0.17
47
304
41
264
1.66
2.15
1.8
1.6
417.1
27347379.0
pmol/l
0.50
34
245
25
139
1.88
2.14
3.8
4.5
0.3
0.1
%
—
8
32
24
132
1.90
2.12
4.0
4.6
0.0
0.2
%
—
8
29
31
187
1.75
2.05
2.2
1.6
1452.4
1113.6
nmol/l
1.39
26
150
179
1569
1.45
2.05
4.6
3.8
14.6
14.4
pmol/l
0.51
165
1465
24
134
1.87
2.03
3.9
4.2
0.3
0.4
%
—
7
25
12
51
2.42
1.98
1.0
2.0
—
—
—
0
0
125
1033
1.40
1.96
7.7
5.6
2.0
2.0
e9/l
0.35
115
926
5
11
4.61
1.95
1.6
1.1
—
—
—
0
0
74
557
1.46
1.94
2.9
2.8
21.0
23.7
ng/l
0.12
40
274
45
307
1.56
1.88
2.7
2.0
483.0
569.7
mosm/kgh2o
1.27
39
249
120
991
1.39
1.87
7.7
5.6
0.5
0.5
e9/l
0.03
110
877
25
146
1.79
1.85
3.8
4.3
1.6
0.4
%
—
8
37
120
993
1.39
1.84
7.8
5.7
0.0
0.0
e9/l
0.45
110
878
5
12
4.23
1.83
1.2
3.8
0.2
1.3
ug/l
—
5
12
56
404
1.49
1.81
1.4
1.8
0.7
0.9
mg/l
0.49
40
293
123
1024
1.38
1.81
8.0
5.8
0.2
0.2
e9/l
0.06
113
916
149
1281
1.38
1.79
3.3
2.9
—
—
—
0
0
9
36
2.55
1.75
8.3
1.7
7.4
7.4
ph
—
9
30
68
514
1.44
1.74
4.0
2.6
2.3
2.4
mmol/l
0.69
61
464
8
31
2.63
1.67
8.9
2.0
—
—
—
0
0
60
447
1.44
1.65
4.4
3.1
7.4
7.4
ph
0.51
21
83
10
43
2.38
1.62
1.1
1.3
—
—
—
0
0
8
32
2.55
1.61
1.3
1.2
—
—
—
0
0
29
185
1.64
1.60
1.3
1.6
—
—
—
0
0
55
408
1.44
1.55
2.4
2.2
—
—
—
0
0
28
179
1.63
1.53
3.6
1.7
2.5
2.5
g/l
0.09
28
169
217
2014
1.47
1.50
12.5
8.9
139.4
139.8
mmol/l
1.66
210
1965
15
80
1.93
1.48
3.2
3.0
62.0
71.1
e9/l
—
10
53
66
511
1.39
1.46
1.7
1.8
—
—
—
0
0
5
16
3.16
1.44
1.6
2.2
—
—
—
0
0
6
22
2.77
1.44
1.5
1.5
—
—
—
0
0
21
127
1.71
1.41
2.7
2.4
15269.3
3637.8
u/l
0.37
11
51
9
41
2.24
1.38
1.1
1.2
—
—
—
0
0
18
105
1.77
1.37
1.2
1.3
—
—
—
0
0
19
113
1.74
1.36
4.2
2.9
7.4
7.4
ph
—
5
14
57
437
1.39
1.34
3.0
2.3
0.1
0.3
e6/l
1.14
45
309
72
575
1.35
1.31
1.7
2.0
—
—
—
0
0
6
24
2.53
1.31
1.7
1.5
—
—
—
0
0
5
18
2.81
1.29
2.4
3.4
—
—
—
0
0
56
432
1.38
1.27
2.3
2.3
5807.7
1361.8
umol/l
0.37
48
396
57
443
1.37
1.23
3.0
2.3
—
—
—
0
0
216
2027
1.39
1.18
12.8
8.9
3.9
3.9
mmol/l
0.09
207
1969
8
39
2.08
1.16
4.0
2.0
—
—
—
0
0
148
1321
1.28
1.16
5.5
3.4
—
—
—
0
0
5
20
2.53
1.15
1.2
1.3
—
—
—
0
0
111
958
1.28
1.13
4.4
2.8
0.0
0.0
estimate
0.00
29
173
46
350
1.38
1.13
1.4
1.2
2.2
6.6
u/ml
1.30
19
149
111
960
1.27
1.11
5.4
4.0
0.0
0.0
estimate
0.00
28
182
112
973
1.27
1.07
4.4
2.8
0.1
0.0
estimate
0.49
29
171
61
492
1.31
1.04
3.1
2.4
11.4
42.8
e6/l
1.59
49
360
47
367
1.34
0.99
1.4
1.3
30.6
29.8
iu/ml
0.02
14
122
5
23
2.20
0.98
3.4
2.8
13.8
19.3
u/ml
—
5
23
25
175
1.47
0.97
1.2
1.3
200.0
185.1
iu/ml
0.04
12
72
61
498
1.29
0.95
4.5
4.0
—
—
—
0
0
12
70
1.75
0.94
1.2
1.1
—
—
—
0
0
9
52
1.76
0.93
1.1
1.2
—
—
—
0
0
14
86
1.66
0.93
4.0
3.1
—
—
—
0
0
128
1144
1.23
0.92
9.6
8.0
4.0
3.9
e9/l
0.35
119
999
6
28
2.17
0.92
2.2
2.3
—
—
—
0
0
16
103
1.59
0.90
2.6
2.9
—
—
—
0
0
232
2225
1.40
0.89
11.6
8.0
30.2
29.1
u/l
0.37
222
2172
8
43
1.89
0.88
1.1
1.2
—
—
—
0
0
74
627
1.25
0.86
1.6
1.5
—
—
—
0
0
60
497
1.27
0.84
1.6
1.6
1.7
1.5
mmol/l
0.35
53
443
11
65
1.72
0.83
8.5
6.2
—
—
—
0
0
50
405
1.29
0.83
4.2
2.9
—
—
—
0
0
18
122
1.51
0.82
1.1
1.2
—
—
—
0
0
6
32
1.90
0.82
1.2
1.1
—
—
—
0
0
41
324
1.32
0.81
1.4
1.6
—
—
—
0
0
0
24
0.00
0.79
0.0
1.3
—
—
—
0
0
6
33
1.84
0.79
1.5
1.5
—
—
—
0
0
197
1861
1.24
0.76
5.2
4.4
1.7
2.4
mu/l
0.54
186
1762
17
116
1.50
0.76
7.6
6.6
—
—
—
0
0
5
24
2.10
0.75
4.0
1.7
—
—
—
0
0
13
84
1.58
0.73
1.4
1.3
—
—
—
0
0
15
214
0.68
0.69
1.1
1.4
—
—
—
0
0
85
750
1.20
0.66
3.8
2.6
—
—
—
0
0
218
2093
1.26
0.66
13.2
9.0
21.5
19.3
mg/l
0.43
180
1552
10
63
1.61
0.62
1.4
1.2
—
—
—
0
0
195
1855
1.20
0.62
15.3
11.1
13.4
13.4
%
0.10
189
1828
56
478
1.22
0.61
7.3
5.8
—
—
—
0
0
0
20
0.00
0.60
0.0
1.4
—
—
—
0
0
6
35
1.73
0.58
1.0
1.1
—
—
—
0
0
63
548
1.20
0.57
1.4
1.3
0.5
1.3
u/ml
2.01
17
161
10
65
1.56
0.56
1.0
1.1
1.3
5.2
u/ml
—
5
36
6
38
1.59
0.54
1.0
1.0
—
—
—
0
0
57
494
1.20
0.54
1.5
1.3
2.3
2.2
g/l
0.12
37
315
183
1914
0.85
0.53
3.8
3.5
5.9
5.7
mmol/l
0.64
169
1810
31
252
1.26
0.53
2.2
1.8
—
—
—
0
0
68
602
1.18
0.51
3.6
3.0
27.8
152.1
e6/l
0.94
50
392
195
2025
0.85
0.49
3.9
3.6
1.4
1.4
mmol/l
0.78
184
1943
17
128
1.35
0.49
1.5
1.4
—
—
—
0
0
10
68
1.49
0.47
1.4
1.8
—
—
—
0
0
39
330
1.21
0.47
1.5
1.3
19.0
20.4
nmol/l
0.23
34
294
30
361
0.81
0.47
1.4
1.6
—
—
—
0
0
17
129
1.34
0.47
3.4
4.1
—
—
—
0
0
66
587
1.17
0.47
4.0
2.4
—
—
—
0
0
32
379
0.82
0.44
1.3
1.4
—
—
—
0
0
0
16
0.00
0.41
0.0
1.0
—
—
—
0
0
0
18
0.00
0.40
0.0
1.8
—
—
—
0
0
20
160
1.27
0.40
7.0
5.8
103.2
104.5
mmol/l
0.45
20
153
13
170
0.75
0.39
2.2
1.8
—
—
—
0
0
44
385
1.17
0.38
3.3
2.8
—
—
—
0
0
64
577
1.14
0.38
1.7
1.7
91.9
96.2
pmol/l
0.39
35
305
14
107
1.33
0.38
1.1
1.3
—
—
—
0
0
6
43
1.40
0.35
1.7
1.3
—
—
—
0
0
228
2232
1.17
0.33
12.9
8.2
—
—
—
0
0
14
110
1.29
0.32
2.1
1.6
294.1
347.0
mu/l
0.27
14
100
25
292
0.84
0.31
1.8
2.2
0.7
0.6
ug/l
—
9
134
15
120
1.27
0.31
3.4
3.3
—
—
—
0
0
77
713
1.11
0.30
1.8
1.9
—
—
—
0
0
100
943
1.10
0.28
2.8
2.3
—
—
—
0
0
36
320
1.15
0.27
4.4
2.6
114.6
72.2
ug/g
0.40
29
250
182
1766
1.10
0.27
4.7
4.1
38.8
38.2
mmol/mol
0.31
170
1697
9
73
1.24
0.25
1.7
1.9
—
—
—
0
0
15
180
0.82
0.25
2.5
2.0
—
—
—
0
0
45
409
1.12
0.25
4.3
3.5
9.7
7.9
mg/mmol
0.12
30
275
15
179
0.83
0.24
3.2
2.1
—
—
—
0
0
15
179
0.83
0.24
2.5
1.8
—
—
—
0
0
15
179
0.83
0.24
2.5
2.0
—
—
—
0
0
200
2043
0.91
0.23
4.2
3.8
2.8
2.9
mmol/l
0.61
186
1952
43
392
1.12
0.23
3.1
2.8
114.7
218.2
mg/l
0.24
30
263
15
125
1.21
0.23
1.1
1.1
—
—
—
0
0
0
11
0.00
0.21
0.0
1.2
—
—
—
0
0
0
11
0.00
0.21
0.0
2.5
—
—
—
0
0
0
11
0.00
0.21
0.0
1.5
—
—
—
0
0
0
10
0.00
0.21
0.0
1.2
—
—
—
0
0
0
10
0.00
0.21
0.0
1.0
—
1509.2
—
0
10
0
13
0.00
0.21
0.0
7.1
—
—
—
0
0
0
13
0.00
0.21
0.0
1.3
—
1.7
—
0
13
0
13
0.00
0.21
0.0
1.1
—
214.1
—
0
13
0
14
0.00
0.20
0.0
1.9
—
—
—
0
0
0
14
0.00
0.20
0.0
2.1
—
—
—
0
0
26
232
1.13
0.19
1.1
1.2
—
—
—
0
0
23
204
1.14
0.18
1.2
1.1
—
—
—
0
0
7
60
1.17
0.18
3.6
4.0
1.1
1.7
%
—
7
60
5
66
0.75
0.17
1.0
1.2
—
—
—
0
0
48
448
1.09
0.17
5.2
2.8
1.0
1.0
kg/l
—
6
60
192
1954
0.93
0.16
3.6
3.3
1.5
1.3
mmol/l
1.33
180
1866
9
78
1.16
0.15
2.2
2.6
—
—
—
0
0
38
355
1.08
0.13
1.5
1.7
—
—
—
0
0
12
104
1.16
0.12
5.9
2.0
—
—
—
0
0
12
135
0.88
0.10
1.2
1.1
—
—
—
0
0
6
56
1.07
0.08
1.0
1.2
—
—
—
0
0
29
273
1.07
0.08
1.8
2.9
893.7
276.7
ng/l
0.48
19
165
6
58
1.04
0.08
2.5
2.1
—
—
—
0
0
15
164
0.91
0.08
2.5
2.1
—
—
—
0
0
7
66
1.06
0.08
5.1
7.5
—
—
—
0
0
211
2091
1.05
0.08
11.7
9.7
41.2
41.3
%
0.09
167
1800
8
77
1.04
0.07
1.9
1.4
—
—
—
0
0
24
227
1.06
0.06
1.7
1.4
—
—
—
0
0
20
212
0.94
0.05
1.3
1.4
—
—
—
0
0
21
222
0.94
0.05
1.2
1.2
—
—
—
0
0
53
516
1.03
0.05
3.0
2.7
9.1
9.0
mmol/l
0.04
46
463
94
925
1.03
0.04
3.3
2.4
99.4
95.1
ug/l
0.08
88
878
242
2428
0.95
0.02
18.9
13.5
7.5
6.5
e9/l
0.66
235
2372
11
117
0.94
0.02
3.2
3.0
—
—
—
0
0
13
137
0.95
0.01
2.5
2.3
—
—
—
0
0
242
2427
0.96
0.01
18.9
13.4
4.6
4.6
e12/l
1.04
235
2376
13
132
0.98
0.00
1.1
1.2
—
—
—
0
0
203
2032
1.00
0.00
3.9
3.6
4.7
4.8
mmol/l
0.64
189
1954
242
2424
0.98
0.00
18.9
13.4
259.8
257.1
e9/l
0.28
235
2375
0
5
0.00
0.00
0.0
2.6
—
—
—
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
0
5
0.00
0.00
0.0
1.0
—
—
—
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
0
5
0.00
0.00
0.0
1.4
—
—
—
0
0
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
0
5
0.00
0.00
0.0
1.2
—
—
—
0
0
0
5
0.00
0.00
0.0
1.0
—
—
—
0
0
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
7
69
1.01
0.00
1.9
3.1
—
—
—
0
0
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
8
82
0.97
0.00
1.5
1.4
—
—
—
0
0
0
7
0.00
0.00
0.0
1.0
—
—
—
0
0
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
8
85
0.94
0.00
1.5
1.5
—
—
—
0
0
0
8
0.00
0.00
0.0
1.6
—
—
—
0
0
7
73
0.96
0.00
12.6
7.9
91.4
94.2
%
—
7
73
7
76
0.92
0.00
11.9
7.7
1.3
1.6
%
—
7
76
8
82
0.97
0.00
1.5
1.4
—
—
—
0
0
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
0
6
0.00
0.00
0.0
1.7
—
38.0
—
0
6
7
69
1.01
0.00
4.3
3.7
124.6
139.4
g/l
—
7
69
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
0
6
0.00
0.00
0.0
1.0
—
—
—
0
0
8
86
0.93
0.00
2.1
2.0
0.1
0.1
e6/l
—
8
80
6
59
1.02
0.00
1.5
1.3
—
—
—
0
0
7
75
0.93
0.00
12.3
7.8
0.8
0.7
%
—
7
75

Mortality – FinRegistry

Association

Association between endpoint AB1_SCARLET_FEVER and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have AB1_SCARLET_FEVER.

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

Index endpoint: AB1_SCARLET_FEVER – Scarlet fever

GWS hits: 1

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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