Carcinoma in situ of oesophagus

CD2_INSITU_OESOPHAGUS

No definition available.

Endpoint definition

↥

Endpoint definition steps	FinnGen
Phenotype data	520210
1. Apply sex-specific rule None	520210
2. Check conditions not C3_OESOPHAGUS	519361
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — D00.1& Hospital discharge: ICD-9 — 2301A Cause of death: ICD-10 — D00.1& Cause of death: ICD-9 — 2301A Cancer registry: Topography ICD-O-3 — C15 Cancer registry: Morphology ICD-O-3 — ANY Cancer registry: Behaviour codes — 2 3 out of 7 registries used, show all original rules.	41
4. Check minimum number of events None	41
5. Include endpoints None	41
6. Filter based on genotype QC (FinnGen only)	41

Control definitions (FinnGen only)

Controls for this endpoint are individuals that are not cases.

Extra metadata

Level in the ICD hierarchy: 3
First used in FinnGen datafreeze: DF9
Parent code in ICD-10: D00
Name in latin: Carcinoma in situ coli

NAME	CD2_INSITU_OESOPHAGUS
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS	!C3_OESOPHAGUS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D001
HD_ICD_9	2301A
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	D001
COD_ICD_9	2301A
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	C15
CANC_TOPO_EXCL
CANC_MORPH	ANY
CANC_MORPH_EXCL
CANC_BEHAV	2

Similar endpoints

↥

List of similar endpoints to Carcinoma in situ of oesophagus based on the number of shared cases.

Similar with more cases:

Similar with less cases:

Carcinoma in situ of oesophagus

Case counts by codes

↥

FinnGen case counts by registry codes:

Upset plot

Full data table

Summary Statistics

↥

-FinRegistry-

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

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	41	8	33
Unadjusted period prevalence (%)	0.01	0.00	0.01
Median age at first event (years)	69.25	70.95	68.83

-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

cases

controls

unit

-log₁₀(p)

N cases

N controls

(40768797) Stomach Pathology biopsy report

14.13

16.86

3.7

1.2

—

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

150

6.14

6.40

8.3

4.4

—

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

4.68

5.62

4.0

2.6

—

(3044640) Blood type and Crossmatch panel - Blood

121

4.61

5.27

4.0

2.6

—

(3045783) Sodium and Potassium panel [Moles/volume] - Serum or Plasma

4.67

4.68

11.6

11.8

—

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

156

3.51

3.48

2.4

2.0

98.2

88.3

pmol/l

0.48

(40768804) Tissue Pathology biopsy report

126

3.18

3.22

3.7

2.1

—

(42868674) Cholesterol in HDL/Cholesterol.total [Molar ratio] in Serum or Plasma

3.42

2.96

5.7

4.5

31.0

29.3

—

(3022313) Gas panel - Capillary blood

4.47

2.62

5.6

3.6

—

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

205

3.10

2.52

7.2

4.4

7.1

6.8

mmol/l

0.30

195

(3020961) Endomysium IgA Ab [Titer] in Serum

6.92

2.44

1.0

1.1

—

(3019060) Gas panel - Arterial blood

3.55

2.32

4.0

3.2

—

(3024561) Albumin [Mass/volume] in Serum or Plasma

145

2.58

2.23

11.0

4.8

34.2

34.8

g/l

0.23

140

(36660697) Celiac disease serology panel - Serum

4.00

2.16

1.9

1.2

—

(3020891) Body temperature

4.49

2.12

5.8

3.6

—

(3019225) pH of Specimen

3.07

2.10

3.2

5.8

—

(3012516) Albumin [Mass/volume] in Urine

106

2.48

2.05

3.1

3.5

2932.6

84.7

mg/l

0.46

(3005895) Myoglobin [Mass/volume] in Serum or Plasma

4.20

2.01

3.2

1.4

390.3

470.9

ug/l

—

(3005772) Bilirubin.conjugated [Moles/volume] in Serum or Plasma

3.29

1.98

1.5

3.4

7.3

11.5

umol/l

—

(3022145) Colonoscopy Study observation

3.61

1.98

1.7

1.3

—

(42870588) Differential panel, method unspecified - Blood

109

2.38

1.90

6.9

5.5

—

(3008909) Norovirus RNA [Presence] in Stool by NAA with probe detection

4.58

1.88

1.4

—

(40761535) Cells panel - Urine sediment

2.95

1.77

2.5

4.0

—

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

3.16

1.74

1.3

1.5

—

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

3.33

1.65

7.2

8.5

—

(3020682) Albumin/Creatinine [Ratio] in Urine

115

2.22

1.63

3.4

4.4

2.1

11.7

mg/mmol

1.68

(3002256) Pathology report gross observation

2.55

1.54

1.4

1.3

—

(3012095) Magnesium [Moles/volume] in Serum or Plasma

2.29

1.49

3.8

3.3

0.8

mmol/l

0.97

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

0.00

1.43

0.0

3.6

—

(3042936) Bacteria identified in Isolate by Culture

2.32

1.37

2.2

1.8

—

(3002582) Erythrocytes [#/volume] in Urine

131

0.44

1.29

2.7

3.1

19.4

73.2

e6/l

—

101

(3000330) Specific gravity of Urine by Test strip

2.85

1.25

1.6

5.9

—

(4035726)

2.51

1.17

1.3

1.5

—

(3028653) Carboxyhemoglobin/Hemoglobin.total in Arterial blood

2.51

1.17

7.3

6.6

1.4

—

(3006217) Methemoglobin/Hemoglobin.total in Arterial blood

2.51

1.17

7.3

7.4

0.9

0.6

—

(3018095) Leukocytes [#/volume] in Urine

136

0.49

1.09

3.0

3.9

185.2

22.8

e6/l

—

102

(3009201) Thyrotropin [Units/volume] in Serum or Plasma

286

2.10

0.99

5.0

4.1

1.9

2.0

mu/l

0.31

251

(36304419) Bacteria [Presence] in Urine

108

0.48

0.88

3.7

2.9

—

(3023368) Bacteria identified in Blood by Culture

128

1.72

0.86

3.1

4.8

—

(3020630) Protein [Mass/volume] in Serum or Plasma

1.95

0.82

1.0

1.9

64.3

66.7

g/l

—

(3022217) INR in Platelet poor plasma by Coagulation assay

1.81

0.81

38.2

24.6

—

1.1

—

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

0.00

0.80

0.0

2.2

—

(40761536) Microorganisms panel - Urine sediment

0.00

0.80

0.0

4.8

—

(3009542) Hematocrit [Volume Fraction] of Blood

271

1.82

0.79

24.7

18.6

34.3

39.5

0.65

184

(3007853) Bacteria identified in Skin by Aerobe culture

1.85

0.74

2.7

2.0

—

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

323

1.94

0.65

28.8

17.4

27.3

28.2

mg/l

0.07

266

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

0.00

0.62

0.0

2.3

—

(3020779) Urea [Moles/volume] in Serum or Plasma

1.78

0.60

4.2

7.6

6.3

10.4

mmol/l

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

303

1.71

0.59

8.7

6.9

43.4

41.1

mmol/mol

0.63

283

(3000991) Gas panel - Venous blood

1.73

0.58

8.7

8.8

—

(3037467) Urinalysis macro (dipstick) panel - Urine

228

1.54

0.56

5.1

4.7

—

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

1.52

0.56

1.0

1.4

—

(3012544) pH of Venous blood

1.58

0.54

2.3

4.3

—

(3013512) EKG study

114

1.50

0.50

7.4

4.8

—

(3026008) Bacteria identified in Urine by Culture

106

1.49

0.47

3.3

3.2

—

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

163

1.44

0.47

2.2

2.9

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.56

0.47

5.9

4.8

—

(3036481) Cortisol [Moles/volume] in Serum or Plasma

1.64

0.44

1.6

1.8

415.2

344.6

nmol/l

—

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

117

1.44

0.43

3.6

5.0

—

(4010399)

1.58

0.43

2.2

1.3

—

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

1.46

0.42

1.9

2.0

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.42

0.0

1.7

—

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

0.00

0.42

0.0

1.3

—

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

0.00

0.41

0.0

1.5

—

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

0.00

0.41

0.0

1.7

—

(3020059) Calcium [Moles/volume] corrected for albumin in Serum or Plasma

0.62

0.40

2.0

3.3

2.5

mmol/l

—

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

1.47

0.39

3.8

4.1

—

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

1.46

0.37

1.5

1.7

—

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

1.42

0.36

1.5

1.8

—

(40758558) Short blood count panel - Blood

1.42

0.32

7.2

7.4

—

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

1.38

0.30

2.4

1.7

1.2

1.4

mmol/l

0.26

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

144

1.31

0.28

2.6

3.4

—

(46235355) HIV 1 and 2 tests - Meaningful Use set

1.22

0.22

1.6

—

(3000494) Fungus identified in Specimen by Culture

1.22

0.22

1.2

1.4

—

(3005702) Mycobacterium sp identified in Specimen by Organism specific culture

0.00

0.21

0.0

1.3

—

(3024928) Oxygen saturation in Venous blood

0.00

0.21

0.0

3.4

—

(4094501)

0.00

0.21

0.0

1.4

—

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

0.00

0.21

0.0

1.2

—

(36305247) Microscopic observation [Identifier] in Isolate by Gram stain

0.00

0.21

0.0

1.6

—

(3019832) Treponema pallidum Ab [Presence] in Serum

0.00

0.21

0.0

1.6

—

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

159

1.24

0.20

3.9

6.3

—

0.0

—

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

334

1.33

0.17

5.9

5.4

2.3

2.6

mmol/l

0.62

302

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

324

1.29

0.16

5.7

4.8

4.2

4.4

mmol/l

0.32

295

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

322

1.33

0.16

6.3

5.0

6.1

6.2

mmol/l

0.07

293

(3044889) 12 lead EKG panel

238

0.84

0.15

5.6

4.2

—

(3041096) Erythrocytes [Presence] in Urine by Automated

0.86

0.08

2.1

4.6

—

(3018418) pH of Serum or Plasma

0.90

0.07

2.4

4.4

—

7.4

—

(3001784) Prostate Specific Ag Free/Prostate specific Ag.total in Serum or Plasma

172

1.08

0.03

4.3

4.5

18.8

21.4

—

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

312

0.97

0.00

5.0

4.3

1.3

mmol/l

0.15

283

(3019250) Coagulation factor VIII activity actual/normal in Platelet poor plasma by Coagulation assay

0.00

0.0

1.4

—

197.6

—

(3018559) Microscopic observation [Identifier] in Buccal smear by Cyto stain

0.00

0.0

1.0

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.0

4.0

—

8.5

—

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

1.02

0.00

2.6

3.0

375.6

110.0

ng/l

—

(3031478) Chlamydophila pneumoniae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.1

—

(3049539) Genetic diseases [Identifier] in Blood or Tissue by FISH Nominal

0.00

0.0

1.3

—

(3028271) Lactate [Moles/volume] in Capillary blood

0.00

0.0

1.6

—

1.5

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.0

4.0

—

4.6

—

(3013527) Hepatitis B virus core IgM Ab [Presence] in Serum

0.00

0.0

1.1

—

(3044927) Protein electrophoresis panel - Urine

0.00

0.0

1.1

—

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

0.00

0.0

1.2

—

(3021387) Prolactin [Units/volume] in Serum or Plasma

0.00

0.0

1.3

—

264.6

—

(40762485) Glomerular basement membrane Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.2

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

1.6

—

(3046524) Influenza virus A Ag [Presence] in Nasopharynx by Immunoassay

0.00

0.0

1.9

—

(3020044) Glucose [Moles/volume] in Cerebral spinal fluid

0.00

0.0

1.2

—

3.6

—

(3029080) Hemoglobin [Entitic mass] in Reticulocytes

0.00

0.0

2.4

—

33.0

—

(3024891) Influenza virus A+B Ag [Presence] in Specimen

0.00

0.0

1.8

—

(3014959) Toxoplasma gondii IgG Ab [Units/volume] in Serum

0.00

0.0

2.6

—

(3040151) Glucose [Moles/volume] in Capillary blood

0.00

0.0

3.0

—

8.0

—

(3032155) Metanephrine Free [Moles/volume] in Serum or Plasma

0.00

0.0

2.2

—

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

0.00

0.0

1.0

—

(3043405) Microscopic observation [Identifier] in Specimen by Non-gynecological cytology method

0.00

0.0

1.2

—

(3043362) Influenza virus B Ag [Presence] in Nasopharynx by Immunoassay

0.00

0.0

1.9

—

(3010566) Parathyrin.intact [Moles/volume] in Serum or Plasma

0.00

0.0

4.8

—

(3043453) Neutrophil cytoplasmic Ab.perinuclear [Titer] in Serum

0.00

0.0

1.0

—

(3026179) Normetanephrine [Moles/volume] in Serum or Plasma

0.00

0.0

2.2

—

0.5

—

(3032699) Streptococcus pneumoniae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.0

—

(42868544) Hantavirus puumala IgM Ab [Presence] in Serum or Plasma by Immunofluorescence

0.00

0.0

1.1

—

(40768795) Lymph node Pathology biopsy report

0.00

0.0

1.7

—

(3027544) Mycobacterium sp identified in Sputum by Organism specific culture

0.00

0.0

3.6

—

(3021952) Alkaline phosphatase isoenzymes [Enzymatic activity/volume] in Serum or Plasma by Heat stability

0.00

0.0

1.0

—

(21494670) JAK2 gene exon 14 targeted mutation analysis in Blood or Tissue by Molecular genetics method

0.00

0.0

1.2

—

(3009214) Lutropin [Units/volume] in Serum or Plasma

0.00

0.0

1.2

—

5.3

—

(3019473) Protein [Mass/volume] in Cerebral spinal fluid

0.00

0.0

1.1

—

732.3

—

(3048821) Cortisol [Moles/volume] in Serum or Plasma --post 1 mg dexamethasone PO overnight

0.00

0.0

1.2

—

(3019230) Fractional oxyhemoglobin in Venous blood

0.00

0.0

2.8

—

66.3

—

(3035637) Corticotropin [Mass/volume] in Plasma

0.00

0.0

1.4

—

(1002224) Polysomnography panel

0.00

0.0

1.2

—

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.0

1.0

—

(21494755) Public health laboratory ask at order entry panel

0.00

0.0

1.6

—

(3030692) Respiratory virus DNA+RNA [Identifier] in Specimen by NAA with probe detection

0.00

0.0

1.0

—

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

324

1.09

0.00

5.8

4.7

1.3

1.4

mmol/l

0.64

293

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: CD2_INSITU_OESOPHAGUS – Carcinoma in situ of oesophagus

GWS hits: -

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

≡ 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 oesophagus

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

Upset plot

Case counts by code for Carcinoma in situ of oesophagus (CD2_INSITU_OESOPHAGUS)

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