Risteys · SCLEROLIV

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 — K74.1 Cause of death: ICD-10 — K74.1 2 out of 7 registries used, show all original rules.	21
4. Check minimum number of events None	21
5. Include endpoints None	21
6. Filter based on genotype QC (FinnGen only)	21

Summary Statistics

↥

-FinRegistry-

Key figures

	All	Female	Male
Number of individuals
Whole population	158	84	73
Only index persons	120	63	57
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	62.21	64.42	59.99
Only index persons	62.24	62.95	61.45

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	21	15	6
Unadjusted period prevalence (%)	0.00	0.01	0.00
Median age at first event (years)	64.17	64.15	64.23

-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)

↥

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

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

unit

cases

controls

-log₁₀(p)

N cases

N controls

(3015399) Transferrin receptor.soluble [Mass/volume] in Serum or Plasma

5.14

3.27

4.8

2.4

mg/l

3.8

3.0

0.59

(42870588) Differential panel, method unspecified - Blood

4.54

2.78

8.7

6.0

—

(3022145) Colonoscopy Study observation

5.98

2.47

3.5

1.5

—

(3033658) Prothrombin time (PT) actual/Normal

3.81

2.24

12.0

2.6

90.3

87.0

0.14

(40771025) 25-Hydroxyvitamin D3+25-Hydroxyvitamin D2 [Moles/volume] in Serum or Plasma

3.73

2.11

4.2

2.4

nmol/l

69.5

80.3

1.16

(40768797) Stomach Pathology biopsy report

4.23

2.10

1.1

1.3

—

(3022096) Basophils/100 leukocytes in Blood

3.65

2.09

11.7

6.7

0.6

0.7

0.13

(3011960) Natriuretic peptide B [Mass/volume] in Serum or Plasma

5.58

2.06

9.6

1.6

ng/l

207.0

118.5

—

(3006504) Eosinophils/100 leukocytes in Blood

3.51

2.04

11.6

6.5

2.5

0.03

(3019069) Monocytes/100 leukocytes in Blood

3.44

2.02

11.6

6.6

9.0

8.6

0.21

(3042936) Bacteria identified in Isolate by Culture

4.03

2.01

3.4

1.5

—

(3001122) Ferritin [Mass/volume] in Serum or Plasma

3.37

1.84

6.2

3.0

ug/l

121.3

90.0

0.23

(3002030) Lymphocytes/100 leukocytes in Blood

3.23

1.74

12.4

6.6

28.1

0.00

(3007853) Bacteria identified in Skin by Aerobe culture

3.57

1.64

1.3

—

(3018677) aPTT in Platelet poor plasma by Coagulation assay

3.39

1.56

1.8

1.6

30.5

30.7

—

(3005719) IgG [Mass/volume] in Serum or Plasma

3.31

1.37

1.8

1.7

g/l

13.7

8.9

—

(3018006) Microscopic observation [Identifier] in Cervix by Cyto stain.thin prep

0.00

1.30

0.0

1.3

—

(3014576) Chloride [Moles/volume] in Serum or Plasma

2.80

1.16

9.4

6.0

mmol/l

103.6

103.2

—

(3017143) Hepatitis C virus Ab [Presence] in Serum

2.80

1.16

1.4

1.9

—

(3021447) Carbon dioxide [Partial pressure] in Venous blood

2.66

1.10

7.8

2.7

kpa

5.0

5.8

—

(3019284) Hepatitis B virus surface Ag [Presence] in Serum

2.70

1.03

1.3

1.7

—

(3021960) Folate [Moles/volume] in Serum or Plasma

2.31

1.01

2.3

1.9

nmol/l

11.9

22.3

—

(3018010) Neutrophils/100 leukocytes in Blood

2.25

1.00

13.4

6.6

57.7

56.8

0.09

(3007164) IgA [Mass/volume] in Serum or Plasma

2.25

0.99

1.6

1.2

g/l

2.4

2.5

—

(3044640) Blood type and Crossmatch panel - Blood

2.01

0.87

2.4

1.8

—

(46236098) ABO and Rh group [Type] in Blood by Confirmatory method

2.25

0.85

2.1

1.8

—

(40768804) Tissue Pathology biopsy report

2.17

0.84

3.4

2.1

—

(3003396) Base excess in Arterial blood by calculation

2.53

0.83

13.8

5.6

mmol/l

-1.2

1.4

—

(3012544) pH of Venous blood

2.41

0.81

7.8

2.7

—

(3001079) Blood group antibody screen [Presence] in Serum or Plasma

2.03

0.79

6.5

3.6

—

(3013826) Glucose [Moles/volume] in Serum or Plasma

114

2.10

0.77

10.3

4.0

mmol/l

6.3

6.8

0.49

108

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

159

0.52

0.72

5.6

5.7

mmol/mol

36.2

40.5

1.18

137

(3019832) Treponema pallidum Ab [Presence] in Serum

0.00

0.62

0.0

1.5

—

(3026008) Bacteria identified in Urine by Culture

1.86

0.58

2.1

3.2

—

(3026493) Urate [Moles/volume] in Serum or Plasma

1.73

0.55

1.4

3.0

umol/l

330.6

8058.6

—

(40758558) Short blood count panel - Blood

1.73

0.55

17.4

8.4

—

(3018251) Fasting glucose [Moles/volume] in Serum or Plasma

161

0.61

0.53

3.4

5.0

mmol/l

5.5

5.9

1.52

139

(3023368) Bacteria identified in Blood by Culture

1.65

0.51

3.8

4.2

—

(3021614) Rheumatoid factor [Units/volume] in Serum or Plasma

1.80

0.47

1.2

1.4

—

17.3

—

(3000330) Specific gravity of Urine by Test strip

0.00

0.43

0.0

3.1

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.56

0.42

7.2

6.5

—

(3022621) pH of Urine by Test strip

0.00

0.42

0.0

3.2

—

(40761535) Cells panel - Urine sediment

0.00

0.42

0.0

2.8

—

(40761511) CBC panel - Blood by Automated count

169

0.61

0.41

29.5

12.3

—

(3009508) Creatinine [Moles/volume] in Urine

1.46

0.38

2.2

3.0

mmol/l

4.3

7.7

—

(706163) SARS-CoV-2 (COVID-19) RNA [Presence] in Respiratory system specimen by NAA with probe detection

1.59

0.36

3.7

2.9

—

(3029287) Urinalysis microscopic panel [#/volume] - Urine by Automated count

1.43

0.34

1.9

3.0

—

(40763086) Leukocyte esterase [Presence] in Urine by Automated test strip

0.60

0.33

2.2

4.4

—

(3010521) Mycoplasma pneumoniae IgM Ab [Presence] in Serum by Immunoassay

0.00

0.22

0.0

1.1

—

(3024889) Methemoglobin/Hemoglobin.total in Venous blood

0.00

0.22

0.0

3.2

—

0.8

—

(3005322) IgE [Units/volume] in Serum or Plasma

0.00

0.22

0.0

1.1

—

84.2

—

(3029511) Human papilloma virus DNA [Presence] in Specimen by NAA with probe detection

0.00

0.22

0.0

1.1

—

(3000620) Complement C3 [Mass/volume] in Serum or Plasma

0.00

0.22

0.0

1.3

—

1.3

—

(3045414) Leukocytes [Presence] in Urine

0.00

0.22

0.0

1.4

—

(3027545) Mycoplasma pneumoniae Ab [Presence] in Serum by Immunoassay

0.00

0.22

0.0

1.7

—

(586526) SARS-CoV-2 (COVID-19) RNA [Presence] in Nasopharynx by NAA with probe detection

0.00

0.22

0.0

1.2

—

(3017766) Complement C4 [Mass/volume] in Serum or Plasma

0.00

0.22

0.0

1.3

—

0.3

—

(3023602) Cholesterol in HDL [Moles/volume] in Serum or Plasma

159

0.80

0.22

4.8

4.7

mmol/l

1.7

1.5

0.48

137

(4010399)

0.00

0.22

0.0

1.3

—

(3004529) Oxygen [Partial pressure] adjusted to patient's actual temperature in Venous blood

0.00

0.22

0.0

2.8

—

43.5

—

(21494755) Public health laboratory ask at order entry panel

0.00

0.22

0.0

1.2

—

(3015736) pH of Urine

0.74

0.20

3.0

3.4

—

(3051714) Fibrin D-dimer FEU [Mass/volume] in Platelet poor plasma

1.25

0.11

1.4

1.7

mg/l

1.2

1.1

—

(3001308) Cholesterol in LDL [Moles/volume] in Serum or Plasma

167

0.82

0.11

5.3

5.2

mmol/l

2.6

0.05

144

(3015377) Calcium [Moles/volume] in Serum or Plasma

1.21

0.10

12.2

3.2

mmol/l

2.3

—

(3044889) 12 lead EKG panel

115

0.91

0.00

4.1

3.9

—

(3008486) Thyroxine (T4) free [Moles/volume] in Serum or Plasma

131

0.98

0.00

4.2

4.6

pmol/l

14.6

14.8

0.09

115

(3006418) Campylobacter sp identified in Tissue by Organism specific culture

0.00

0.0

1.4

—

(3001019) Free T4 and TSH panel - Serum or Plasma

0.00

0.0

2.2

—

(3039162) Centromere protein B Ab [Units/volume] in Serum

0.00

0.0

1.2

—

(3002482) Mycoplasma pneumoniae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.6

—

(3043109) Cytology report of Tissue fine needle aspirate Cyto stain

0.00

0.0

1.6

—

(3019145) Choriogonadotropin.beta subunit free [Mass/volume] in Serum or Plasma

0.00

0.0

1.2

—

(3040853) Adenovirus DNA [Identifier] in Specimen by NAA with probe detection

0.00

0.0

1.2

—

(42529200) Cancer Ag 15-3 [Units/volume] in Serum or Plasma by Immunoassay

0.00

0.0

3.2

—

225.5

—

(3007844) Epstein Barr virus capsid IgM Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.0

—

(3029338) Protein.monoclonal band 3 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(3015635) Cytomegalovirus IgM Ab [Units/volume] in Serum or Plasma

0.00

0.0

1.1

—

(3004383) Neutrophil cytoplasmic Ab.classic [Titer] in Serum by Immunofluorescence

0.00

0.0

1.1

—

(36304419) Bacteria [Presence] in Urine

0.90

0.00

2.2

2.7

—

(3048773) Triglyceride [Moles/volume] in Serum or Plasma --fasting

153

0.93

0.00

4.5

4.1

mmol/l

1.0

1.2

1.49

131

(3018387) Mycoplasma pneumoniae IgG Ab [Units/volume] in Serum

0.00

0.0

1.1

—

(3035285) Chloride [Moles/volume] in Venous blood

0.00

0.0

2.6

—

107.0

—

(3003191) Choriogonadotropin (pregnancy test) [Presence] in Serum or Plasma

0.00

0.0

2.3

—

(3029379) Protein.monoclonal band 4 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(3014051) Protein [Presence] in Urine by Test strip

0.00

0.0

1.4

—

(1002224) Polysomnography panel

0.00

0.0

1.1

—

(3038515) Glucose [Moles/volume] in Venous blood

0.00

0.0

2.8

—

6.5

—

(3041354) Potassium [Moles/volume] in Venous blood

0.00

0.0

2.6

—

3.9

—

(3006588) Cancer Ag 15-3 [Units/volume] in Serum or Plasma

0.00

0.0

2.0

—

18.3

—

(3048929) Epstein Barr virus Ab [Presence] in Serum

0.00

0.0

1.0

—

(3036086) Jo-1 extractable nuclear Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.3

—

(1761482) Bacteria [#/volume] in Urine by Culture

0.00

0.0

4.1

—

(3002434) Lupus erythematosus deoxynucleoproteins IgG Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.2

—

(3015171) Extractable nuclear Ab [Units/volume] in Serum

0.00

0.0

1.5

—

(3015322) Alpha 1 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

3.4

—

(3017918) Cytomegalovirus IgG Ab [Titer] in Serum or Plasma

0.00

0.0

1.1

—

(3025839) Triglyceride [Moles/volume] in Serum or Plasma

1.05

0.00

1.2

1.8

mmol/l

1.1

1.2

—

(3023465) Gamma globulin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

8.9

—

(3037467) Urinalysis macro (dipstick) panel - Urine

127

1.06

0.00

6.5

5.0

—

(3021901) Oxygen saturation in Capillary blood

0.00

0.0

2.6

—

(3014765) Yersinia sp identified in Stool by Organism specific culture

0.00

0.0

1.3

—

(3035797) Protein.monoclonal band 2 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(3046870) Tissue transglutaminase IgG Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(3013512) EKG study

0.88

0.00

3.4

4.2

—

(3011397) Hemoglobin [Presence] in Urine by Test strip

1.00

0.00

2.6

3.9

—

(3043723) Beta 1 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

(3023150) Myeloperoxidase Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(42529406) Shigella sp [Presence] in Stool by Culture

0.00

0.0

1.3

—

(3025245) SCL-70 extractable nuclear Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.1

—

(3008898) HLA-B27 [Presence]

0.00

0.0

1.4

—

(3025941) Bacteria identified in Stool by Culture

0.00

0.0

1.3

—

(3028286) Albumin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

35.1

—

(3010130) Cytomegalovirus IgG Ab [Units/volume] in Serum or Plasma

0.00

0.0

1.1

—

(3033705) Calcium.ionized [Moles/volume] in Venous blood

0.00

0.0

2.6

—

(3003694) ABO and Rh group [Type] in Blood

1.00

0.00

1.2

1.5

—

(3029713) Protein.monoclonal band 1 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(3021584) Pregnancy associated plasma protein A [Units/volume] in Serum or Plasma

0.00

0.0

1.3

—

(3019900) Cholesterol [Moles/volume] in Serum or Plasma

162

0.95

0.00

4.9

4.6

mmol/l

4.7

4.5

0.29

142

(40768793) Breast Pathology biopsy report

0.00

0.0

1.3

—

(3008037) Lactate [Moles/volume] in Venous blood

0.00

0.0

2.8

—

1.7

—

Mortality – FinRegistry

↥

Association

Association between endpoint SCLEROLIV and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have SCLEROLIV.

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: SCLEROLIV – Sclerosis of liver

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

Loading data

NAME	SCLEROLIV
CONTROL_EXCLUDE	CIRRHOSIS_BROAD
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	K741
HD_ICD_9	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
HD_ICD_8	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	K741
COD_ICD_9	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
COD_ICD_8	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
COD_ICD_10_EXCL
COD_ICD_9_EXCL
COD_ICD_8_EXCL
OPER_NOM
OPER_HL
OPER_HP1
OPER_HP2
KELA_REIMB
KELA_REIMB_ICD
KELA_ATC_NEEDOTHER
KELA_ATC
KELA_VNRO_NEEDOTHER
KELA_VNRO
CANC_TOPO
CANC_TOPO_EXCL
CANC_MORPH
CANC_MORPH_EXCL
CANC_BEHAV

Sclerosis of liver

Endpoint definition

Endpoint definition steps

FinnGen

Phenotype data

1. Apply sex-specific rule

2. Check conditions

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

4. Check minimum number of events

5. Include endpoints

6. Filter based on genotype QC (FinnGen only)

Similar endpoints

Case counts by codes

Summary Statistics

-FinRegistry-

Key figures

-FinnGen-

Key figures

-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

CodeWAS (R11)

LabWAS

Mortality – FinRegistry

Association

Females

Males

Mortality risk

Relationships between endpoints