Risteys · CD2_INSITU_DIGESTIVE

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 — D01.7&, D01.9& Hospital discharge: ICD-9 — 2309 Cause of death: ICD-10 — D01.7&, D01.9& Cause of death: ICD-9 — 2309 2 out of 7 registries used, show all original rules.	13
4. Check minimum number of events None	13
5. Include endpoints None	13
6. Filter based on genotype QC (FinnGen only)	13

Summary Statistics

↥

-FinRegistry-

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

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	13	5	8
Unadjusted period prevalence (%)	0.00	0.00	0.00
Median age at first event (years)	58.71	49.52	64.44

-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

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

0.00

1.15

0.0

1.9

—

1.2

—

(3044889) 12 lead EKG panel

0.41

0.84

7.4

5.0

—

(3019050) Tissue transglutaminase IgA Ab [Units/volume] in Serum

0.00

0.66

0.0

1.3

—

1.0

—

(40761511) CBC panel - Blood by Automated count

100

0.48

0.51

28.8

17.9

—

(3020460) C reactive protein [Mass/volume] in Serum or Plasma

0.50

28.9

17.4

mg/l

28.0

21.8

—

(3044640) Blood type and Crossmatch panel - Blood

1.83

0.48

4.0

3.5

—

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

0.57

0.47

6.0

4.8

mmol/l

5.9

—

(3038288) Influenza virus B RNA [Presence] in Specimen by NAA with probe detection

0.00

0.44

0.0

1.5

—

(3019902) Methicillin resistant Staphylococcus aureus [Presence] in Specimen by Organism specific culture

0.00

0.44

0.0

5.2

—

(40761536) Microorganisms panel - Urine sediment

0.00

0.44

0.0

4.3

—

(3043924) Respiratory syncytial virus RNA [Identifier] in Specimen by NAA with probe detection

0.00

0.44

0.0

1.6

—

(3013512) EKG study

1.69

0.29

1.8

4.1

—

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

1.61

0.26

6.0

5.2

—

(3037467) Urinalysis macro (dipstick) panel - Urine

0.67

0.25

6.3

5.2

—

(3024135) Streptococcus.beta-hemolytic [Presence] in Throat by Organism specific culture

0.00

0.22

0.0

1.1

—

(3048689) Calprotectin [Mass/mass] in Stool

0.00

0.22

0.0

1.4

—

133.8

—

(3017732) Neutrophils [#/volume] in Blood

0.00

0.22

0.0

5.8

—

3.4

—

(3022145) Colonoscopy Study observation

0.00

0.22

0.0

1.1

—

(3051552) Clostridioides difficile toxin genes [Presence] in Stool by NAA with probe detection

0.00

0.22

0.0

1.3

—

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

0.00

0.22

0.0

1.2

—

(3022621) pH of Urine by Test strip

0.00

0.22

0.0

1.8

—

(3015736) pH of Urine

1.31

0.12

6.2

4.4

—

(3016431) Calcium.ionized [Moles/volume] adjusted to pH 7.4 in Serum or Plasma

1.20

0.11

7.2

7.6

mmol/l

1.2

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

0.00

0.0

1.0

—

(3024403) Complement+Immunoglobulin [Units/volume] in Red Blood Cells

0.00

0.0

1.8

—

(3003284) Neutrophil cytoplasmic Ab.perinuclear [Titer] in Serum by Immunofluorescence

0.00

0.0

1.5

—

(3020961) Endomysium IgA Ab [Titer] in Serum

0.00

0.0

1.0

—

(3004490) Bicarbonate [Moles/volume] standard in Capillary blood

0.00

0.0

2.3

—

24.4

—

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

0.00

0.0

2.5

—

(3008898) HLA-B27 [Presence]

0.00

0.0

1.2

—

(3049804) Myeloperoxidase IgG Ab [Units/volume] in Serum

0.00

0.0

1.2

—

(3003510) Neisseria gonorrhoeae DNA [Presence] in Urine by NAA with probe detection

0.00

0.0

1.0

—

(3024950) Chlamydia trachomatis DNA [Presence] in Urine by NAA with probe detection

0.00

0.0

1.0

—

(1616796) Gas panel - Central venous blood

0.00

0.0

4.8

—

(3009445) Proteinase 3 Ab [Units/volume] in Serum

0.00

0.0

1.1

—

(3042194) Human metapneumovirus RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.0

—

(36660697) Celiac disease serology panel - Serum

0.00

0.0

1.2

—

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

0.00

0.0

1.4

—

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

0.00

0.0

2.6

—

2.0

—

(3035995) Alkaline phosphatase [Enzymatic activity/volume] in Serum or Plasma

0.94

0.00

10.3

8.4

u/l

79.1

81.9

—

(3045414) Leukocytes [Presence] in Urine

0.00

0.0

1.9

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.0

4.7

—

4.8

—

(3003327) Ova and parasites identified in Stool by Light microscopy

0.00

0.0

1.3

—

(3049717) Cytology report of Urine Cyto stain

0.00

0.0

5.0

—

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

0.00

0.0

2.4

—

(4034850)

0.00

0.0

6.0

—

(3021347) Calcium.ionized [Moles/volume] in Serum or Plasma

1.00

0.00

6.8

7.8

mmol/l

1.2

—

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

0.00

0.0

5.9

—

3.9

—

(3000492) Spirometry study

0.00

0.0

1.6

—

(40768443) Skin Pathology biopsy report

0.00

0.0

1.0

—

(3012336) Haptoglobin [Mass/volume] in Serum or Plasma

0.00

0.0

1.1

—

1.5

—

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

0.00

0.0

8.6

—

24.4

—

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

0.00

0.0

1.2

—

(3022313) Gas panel - Capillary blood

0.00

0.0

2.0

—

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

0.00

0.0

1.0

—

(3010421) pH of Blood

0.00

0.0

4.9

—

7.4

—

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

0.86

0.00

9.5

6.5

mmol/l

7.6

6.9

—

(3004588) Protein electrophoresis panel - Serum or Plasma

0.00

0.0

1.7

—

(3023024) Carbon dioxide [Partial pressure] in Capillary blood

0.00

0.0

3.5

—

4.8

—

(3019832) Treponema pallidum Ab [Presence] in Serum

0.00

0.0

1.4

—

(3003338) MCHC [Mass/volume]

1.17

0.00

50.8

21.3

g/l

333.1

330.7

—

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

0.00

0.0

9.0

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.0

4.7

—

8.5

—

(36031861) Influenza virus A and B and SARS-CoV-2 (COVID-19) and Respiratory syncytial virus RNA panel - Respiratory system specimen by NAA with probe detection

0.00

0.0

2.0

—

(3000067) Parathyrin.intact [Mass/volume] in Serum or Plasma

0.00

0.0

2.8

—

55.9

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: CD2_INSITU_DIGESTIVE_NOS – Carcinoma in situ of other/unspecified digestive organs

GWS hits: -

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

NAME	CD2_INSITU_DIGESTIVE_NOS
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D01[7\|9]
HD_ICD_9	2309
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	D01[7\|9]
COD_ICD_9	2309
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 of other/unspecified digestive organs

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

Case counts by code for Carcinoma in situ of other/unspecified digestive organs (CD2_INSITU_DIGESTIVE_NOS)

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