Risteys · CD2_INSITU_NOS

Endpoint definition steps	FinnGen
Phenotype data
1. Apply sex-specific rule None	-
2. Check conditions None
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — D09.7&, D09.9& Hospital discharge: ICD-9 — 234[8-9] Cause of death: ICD-10 — D09.7&, D09.9& Cause of death: ICD-9 — 234[8-9] 2 out of 7 registries used, show all original rules.	-
4. Check minimum number of events None	-
5. Include endpoints None	-
6. Filter based on genotype QC (FinnGen only) None	-

Summary Statistics

↥

-FinRegistry-

This endpoint is excluded from FinRegistry analyses (omitted endpoint).

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	25	10	15
Unadjusted period prevalence (%)	0.01	0.00	0.01
Median age at first event (years)	70.01	68.72	70.86

-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

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

unit

cases

controls

-log₁₀(p)

N cases

N controls

(40768804) Tissue Pathology biopsy report

7.57

5.95

3.1

1.7

—

(3002256) Pathology report gross observation

11.54

4.06

2.1

1.3

—

(3000330) Specific gravity of Urine by Test strip

9.99

2.88

12.2

3.8

—

(3044640) Blood type and Crossmatch panel - Blood

3.93

2.76

2.7

2.2

—

(46235759) Influenza virus B RNA [Presence] in Nasopharynx by NAA with probe detection

7.45

2.49

3.0

2.0

—

(3044254) Respiratory syncytial virus RNA [Presence] in Specimen by NAA with probe detection

7.45

2.49

1.6

1.8

—

(3030981) Hyaline casts [#/volume] in Urine by Automated count

5.27

2.30

7.7

4.7

e6/l

0.6

0.1

—

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

3.21

2.06

4.1

3.5

—

(3044938) Influenza virus A RNA [Presence] in Specimen by NAA with probe detection

3.19

1.79

2.1

1.9

—

(3026008) Bacteria identified in Urine by Culture

2.90

1.74

4.8

3.1

—

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

3.22

1.70

2.2

2.3

—

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

3.03

1.65

1.4

1.6

mg/l

3.2

1.2

—

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

2.58

1.42

5.3

3.2

—

(3013512) EKG study

2.60

1.34

4.7

4.3

—

(3000494) Fungus identified in Specimen by Culture

2.86

1.21

1.6

1.7

—

(43054903) Holo-transcobalamin II [Moles/volume] in Serum

2.26

1.10

1.8

2.1

pmol/l

81.9

89.1

—

(3044889) 12 lead EKG panel

128

2.02

0.85

5.1

4.2

—

(3007853) Bacteria identified in Skin by Aerobe culture

2.34

0.80

3.0

2.9

—

(3023368) Bacteria identified in Blood by Culture

1.94

0.72

3.9

5.1

—

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

2.00

0.64

1.2

—

(3021337) Troponin I.cardiac [Mass/volume] in Serum or Plasma

1.77

0.55

4.3

4.2

ng/l

132.9

67.2

—

(3009261) Glucose [Presence] in Urine by Test strip

100

0.58

0.54

9.7

3.5

—

0.0

—

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

117

1.71

0.53

6.5

4.4

mmol/l

6.5

7.0

0.73

106

(3042936) Bacteria identified in Isolate by Culture

1.76

0.46

1.0

2.0

—

(3016293) Bicarbonate [Moles/volume] in Serum or Plasma

0.00

0.43

0.0

5.2

—

25.1

—

(40761536) Microorganisms panel - Urine sediment

0.00

0.42

0.0

4.2

—

(3037467) Urinalysis macro (dipstick) panel - Urine

122

1.57

0.41

9.2

4.7

—

(36304419) Bacteria [Presence] in Urine

1.41

0.34

4.4

2.9

—

(3020564) Creatinine [Moles/volume] in Serum or Plasma

178

1.62

0.31

38.0

19.9

umol/l

103.1

87.3

0.63

178

(3021601) Nitrite [Presence] in Urine by Test strip

100

0.71

0.28

16.3

4.3

—

0.0

—

(3002109) Cholesterol in LDL/Cholesterol in HDL [Mass Ratio] in Serum or Plasma

0.00

0.22

0.0

2.0

—

(4034850)

0.00

0.21

0.0

8.1

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

164

1.35

0.18

9.3

7.1

mmol/mol

39.9

42.4

0.91

153

(3035350) Ketones [Presence] in Urine by Test strip

0.76

0.18

8.6

3.5

—

0.0

—

(3009542) Hematocrit [Volume Fraction] of Blood

143

1.33

0.17

34.3

18.5

37.0

39.3

—

(40758558) Short blood count panel - Blood

1.14

0.10

20.4

4.6

—

(3041096) Erythrocytes [Presence] in Urine by Automated

1.11

0.10

11.8

3.8

—

(3018418) pH of Serum or Plasma

1.09

0.09

4.7

4.2

—

7.4

—

(42870588) Differential panel, method unspecified - Blood

0.81

0.09

15.2

5.7

—

(3022096) Basophils/100 leukocytes in Blood

0.84

0.08

19.3

5.7

0.5

0.6

—

(3015736) pH of Urine

0.84

0.08

14.3

3.1

—

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

1.17

0.08

2.1

2.2

—

(3013115) Eosinophils [#/volume] in Blood

1.16

0.05

16.7

4.5

e9/l

0.2

—

(3026910) Gamma glutamyl transferase [Enzymatic activity/volume] in Serum or Plasma

106

1.07

0.00

3.6

3.0

u/l

46.0

45.7

0.01

100

(40762366) Oxygen capacity [Volume Fraction] in Arterial blood

0.00

0.0

6.9

—

(3008230) Borrelia burgdorferi IgM Ab [Units/volume] in Serum

0.00

0.0

1.8

—

(3002030) Lymphocytes/100 leukocytes in Blood

0.95

0.00

18.6

5.7

22.8

24.3

—

(36033641) SARS-CoV-2 (COVID-19) Ag [Presence] in Upper respiratory specimen by Rapid immunoassay

0.00

0.0

1.8

—

(1761868) Lipid panel - Serum or Plasma

1.07

0.00

8.7

2.9

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

0.00

0.0

1.2

—

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

0.96

0.00

9.4

3.6

—

(4094501)

0.00

0.0

1.0

—

(1616796) Gas panel - Central venous blood

0.00

0.0

1.7

—

(3044491) Cholesterol non HDL [Mass/volume] in Serum or Plasma

0.00

0.0

1.9

—

(3030366) Cystatin C [Mass/volume] in Serum or Plasma

0.00

0.0

1.4

—

1.5

—

(46237023) Hepatitis B virus core and surface Ab and surface Ag panel - Serum

0.00

0.0

1.4

—

(1002224) Polysomnography panel

0.00

0.0

1.6

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.0

1.5

—

8.0

—

(3016888) Borrelia burgdorferi IgG Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.0

—

(3026989) Triiodothyronine (T3) Free [Moles/volume] in Serum or Plasma

0.00

0.0

3.8

—

4.8

—

(3050380) Cytology report of Cervical or vaginal smear or scraping Cyto stain

0.00

0.0

1.0

—

(3000034) Microalbumin [Mass/volume] in Urine

0.00

0.0

4.6

—

7.7

—

(3019069) Monocytes/100 leukocytes in Blood

0.96

0.00

20.3

5.7

9.5

8.4

—

(3018010) Neutrophils/100 leukocytes in Blood

0.96

0.00

17.5

5.2

61.5

61.0

—

(40761511) CBC panel - Blood by Automated count

178

1.04

0.00

23.1

15.6

—

(3006504) Eosinophils/100 leukocytes in Blood

0.98

0.00

18.6

5.7

3.2

2.5

—

(3050238) Crystals [Presence] in Synovial fluid by Light microscopy

0.00

0.0

1.0

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.0

1.5

—

5.1

—

(3019198) Lymphocytes [#/volume] in Blood

0.95

0.00

15.9

4.5

e9/l

1.7

1.8

—

Mortality – FinRegistry

↥

This endpoint is excluded from FinRegistry analyses (omitted endpoint).

Relationships between endpoints

↥

Index endpoint: CD2_INSITU_NOS_EXALLC – Carcinoma in situ, other/unspecified

GWS hits: -

This endpoint is excluded from FinRegistry analyses (omitted endpoint).

NAME	CD2_INSITU_NOS_EXALLC
CONTROL_EXCLUDE	C3_CANCER\|C3_CANCER_WIDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D09[7\|9]
HD_ICD_9	234[8-9]
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	D09[7\|9]
COD_ICD_9	234[8-9]
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

≡ Risteys

FG R12 + FR

FinnGen R11 + FinRegistry

FinnGen R10 + FinRegistry

FinnGen R10

FinnGen R9

FinnGen R8

FinnGen R7

FinnGen R6

FinnGen R5

FinnGen R4

FinnGen R3

Carcinoma in situ, other/unspecified

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)

All original rules

Similar endpoints

Case counts by codes

Summary Statistics

-FinRegistry-

-FinnGen-

Key figures

-FinnGen-

Age distribution of first events

-FinnGen-

Year distribution of first events

-FinnGen-

Cumulative Incidence Function

CodeWAS (R11)

LabWAS

Mortality – FinRegistry

Relationships between endpoints