Colorectal squamous cell carcinoma, excluding all cancers (controls excluding all cancers)

C3_COLORECTAL_SQUAM_EXALLC

No definition available.

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: Cancer registry: Topography ICD-O-3 — C1[8-9]\|C20 Cancer registry: Morphology ICD-O-3 — 8070 Cancer registry: Behaviour codes — 3 1 out of 7 registries used, show all original rules.	38
4. Check minimum number of events None	38
5. Include endpoints None	38
6. Filter based on genotype QC (FinnGen only)	38

Control definitions (FinnGen only)

Control exclude: C3_CANCER, C3_CANCER_WIDE_EXALLC

Extra metadata

First used in FinnGen datafreeze: DF12

NAME	C3_COLORECTAL_SQUAM_EXALLC
CONTROL_EXCLUDE	C3_CANCER\|C3_CANCER_WIDE_EXALLC
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10
HD_ICD_9
HD_ICD_8
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10
COD_ICD_9
COD_ICD_8
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	C1[8-9]\|C20
CANC_TOPO_EXCL
CANC_MORPH	8070
CANC_MORPH_EXCL
CANC_BEHAV	3

Similar endpoints

↥

List of similar endpoints to Colorectal squamous cell carcinoma, excluding all cancers (controls excluding all cancers) based on the number of shared cases.

Similar with more cases:

Similar with less cases:

Colorectal squamous cell carcinoma

Case counts by codes

↥

FinnGen case counts by registry codes:

Not enough data for upset plot.

Full data table

Summary Statistics

↥

-FinRegistry-

This endpoint is excluded (different definition than used in FinnGen).

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	38	31	7
Unadjusted period prevalence (%)	0.01	0.01	0.00
Median age at first event (years)	62.06	59.94	71.42

-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

(3003785) Carcinoembryonic Ag [Mass/volume] in Serum or Plasma

73.20

40.23

3.4

1.6

2.1

3.6

ug/l

—

(3022145) Colonoscopy Study observation

21.65

21.50

2.8

1.2

—

(4035726)

36.18

14.21

1.4

1.0

—

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

6.51

7.28

2.3

1.8

0.8

mmol/l

1.11

(3023368) Bacteria identified in Blood by Culture

5.93

6.91

6.3

3.7

—

(40768804) Tissue Pathology biopsy report

116

6.37

6.60

3.5

1.5

—

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

129

6.24

6.22

9.0

3.9

35.3

36.1

g/l

0.37

121

(40758558) Short blood count panel - Blood

4.36

4.66

10.1

4.4

—

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

4.24

4.59

8.4

2.0

2.3

2.4

mmol/l

0.55

(3033658) Prothrombin time (PT) actual/Normal

4.07

4.18

3.2

3.3

101.1

93.6

0.52

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

7.00

3.93

1.2

1.4

—

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

3.65

3.73

3.6

2.9

—

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

3.73

3.62

2.6

1.9

—

(3006140) Bilirubin.total [Moles/volume] in Serum or Plasma

169

4.01

3.60

11.4

3.3

8.0

9.8

umol/l

2.12

155

(3002256) Pathology report gross observation

4.28

3.50

2.0

1.1

—

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

7.50

3.35

6.1

6.9

24.7

26.0

mmol/l

—

(3029879) Epithelial cells.squamous [#/volume] in Urine by Automated count

3.68

3.20

2.5

2.8

2.7

5.3

e6/l

—

(36304419) Bacteria [Presence] in Urine

3.13

2.85

3.7

2.8

—

(3032080) INR in Blood by Coagulation assay

101

3.07

2.85

5.7

6.7

1.0

1.2

inr

—

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

127

3.05

2.78

5.8

3.7

—

(3044640) Blood type and Crossmatch panel - Blood

2.99

2.64

3.1

1.9

—

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

2.85

2.06

5.0

2.0

2.5

2.4

mmol/l

0.33

(3037467) Urinalysis macro (dipstick) panel - Urine

215

2.87

2.05

5.6

4.0

—

(3025941) Bacteria identified in Stool by Culture

4.24

2.02

1.0

1.3

—

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

3.05

1.96

2.8

1.7

—

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

3.49

1.90

1.7

1.9

—

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

3.49

1.90

1.7

1.9

—

(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

4.62

1.88

2.4

1.7

—

(42870588) Differential panel, method unspecified - Blood

102

2.45

1.88

5.0

5.1

—

(3030306) Epithelial cells.non-squamous [#/volume] in Urine by Automated count

2.67

1.85

2.1

2.5

0.2

1.2

e6/l

—

(3014007) Fractional oxyhemoglobin in Arterial blood

4.25

1.77

6.0

8.7

97.4

93.4

—

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

4.25

1.77

9.4

7.8

—

(3019198) Lymphocytes [#/volume] in Blood

150

2.35

1.71

3.8

5.1

1.3

1.8

e9/l

2.50

137

(3006315) Basophils [#/volume] in Blood

150

2.35

1.71

3.5

5.1

0.0

e9/l

1.49

134

(3001604) Monocytes [#/volume] in Blood

150

2.35

1.71

3.4

5.0

0.5

e9/l

0.07

134

(3028653) Carboxyhemoglobin/Hemoglobin.total in Arterial blood

3.94

1.67

6.0

7.9

0.9

1.7

—

(3006217) Methemoglobin/Hemoglobin.total in Arterial blood

3.94

1.67

6.0

7.9

0.4

0.8

—

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

3.67

1.57

1.0

1.1

—

(3000492) Spirometry study

3.19

1.57

1.0

1.2

—

(3007853) Bacteria identified in Skin by Aerobe culture

2.83

1.54

1.3

1.5

—

(3013115) Eosinophils [#/volume] in Blood

155

2.23

1.53

4.3

5.1

0.2

e9/l

0.51

139

(3021589) Normoblasts [#/volume] in Blood

119

2.19

1.51

17.2

8.1

0.0

e9/l

0.00

(3002173) Hemoglobin [Mass/volume] in Arterial blood

2.77

1.36

8.3

6.8

112.7

123.8

g/l

—

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

3.04

1.33

1.8

1.6

—

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

124

2.06

1.31

2.2

1.8

87.1

99.0

pmol/l

—

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

2.19

1.31

1.9

1.3

—

(3000991) Gas panel - Venous blood

2.87

1.25

6.4

7.8

—

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

2.58

1.12

1.6

2.3

—

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

2.37

1.12

1.1

1.5

—

(3016771) Amylase [Enzymatic activity/volume] in Serum or Plasma

105

1.90

1.04

4.8

2.1

57.4

56.2

u/l

0.06

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

1.94

0.90

1.3

1.2

—

(3003396) Base excess in Arterial blood by calculation

2.11

0.89

8.3

6.2

-0.0

2.2

mmol/l

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.94

0.86

4.6

4.2

—

(36660697) Celiac disease serology panel - Serum

0.00

0.81

0.0

1.1

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

311

0.54

0.79

3.7

6.2

37.0

40.4

mmol/mol

2.25

292

(3048689) Calprotectin [Mass/mass] in Stool

1.81

0.73

1.3

1.6

92.9

106.3

ug/g

—

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

1.90

0.69

1.4

2.1

—

(3013721) Aspartate aminotransferase [Enzymatic activity/volume] in Serum or Plasma

108

1.64

0.67

2.5

2.8

24.3

29.1

u/l

0.72

101

(43534045) MCM6 gene c.-13910C>T and -13915T>G [Identifier] in Blood or Tissue by Molecular genetics method Nominal

0.00

0.62

0.0

1.1

—

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

0.00

0.62

0.0

1.2

—

(21494755) Public health laboratory ask at order entry panel

1.84

0.61

1.0

1.4

—

(3009542) Hematocrit [Volume Fraction] of Blood

300

1.76

0.53

22.7

12.4

37.9

39.7

1.26

217

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

0.00

0.42

0.0

1.2

—

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

178

1.40

0.39

3.1

2.8

—

(3002385) Erythrocyte distribution width [Ratio]

263

1.43

0.34

33.6

13.8

13.6

0.53

257

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

1.36

0.33

1.6

1.3

—

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

325

0.75

0.32

3.9

4.8

5.7

5.9

mmol/l

0.93

300

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

172

1.34

0.31

7.0

3.9

6.6

6.7

mmol/l

0.09

157

(3013512) EKG study

1.39

0.30

3.6

—

(3007220) Creatine kinase [Enzymatic activity/volume] in Serum or Plasma

105

1.36

0.30

1.4

2.0

95.8

115.0

u/l

0.25

(3041096) Erythrocytes [Presence] in Urine by Automated

1.37

0.28

3.9

3.7

—

(3020891) Body temperature

0.00

0.22

0.0

3.3

—

(3018405) Lactate [Moles/volume] in Arterial blood

0.00

0.22

0.0

3.6

—

1.2

—

(40768443) Skin Pathology biopsy report

0.00

0.22

0.0

1.3

—

(3019832) Treponema pallidum Ab [Presence] in Serum

0.00

0.21

0.0

1.2

—

(1002224) Polysomnography panel

0.00

0.21

0.0

1.1

—

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

0.00

0.21

0.0

1.2

—

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

0.78

0.17

1.3

1.2

2.0

2.4

g/l

—

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

1.20

0.17

1.4

1.8

3.6

0.7

mg/l

—

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

301

0.85

0.17

4.6

5.0

2.0

1.9

mu/l

0.13

276

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

116

1.18

0.11

3.5

4.0

—

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

134

0.85

0.11

2.6

2.3

74.7

78.8

nmol/l

0.19

119

(3044889) 12 lead EKG panel

229

1.13

0.06

4.0

3.6

—

(1761868) Lipid panel - Serum or Plasma

110

0.88

0.06

1.9

3.0

—

(3026008) Bacteria identified in Urine by Culture

1.07

0.00

4.4

2.9

—

(3015736) pH of Urine

108

1.03

0.00

2.5

3.6

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.0

—

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

0.00

0.0

2.3

—

4.0

—

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

0.00

0.0

1.0

—

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

0.00

0.0

2.3

—

(3013327) Hepatitis A virus IgM Ab [Presence] in Serum

0.00

0.0

1.0

—

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

0.95

0.00

1.4

2.3

30991.3

11073.0

umol/l

—

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

0.00

0.0

1.0

—

(3030408) 3-Methoxytyramine [Moles/volume] in Serum or Plasma

0.00

0.0

1.3

—

(1001926) Buprenorphine [Presence] in Urine by Screen method

0.00

0.0

1.0

—

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

0.00

0.0

2.3

—

106.2

—

(3022313) Gas panel - Capillary blood

0.00

0.0

6.7

—

(3044927) Protein electrophoresis panel - Urine

0.00

0.0

1.2

—

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

0.00

0.0

3.1

—

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

0.00

0.0

1.5

—

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

0.00

0.0

2.4

—

1.4

—

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

0.00

0.0

2.4

—

8.3

—

(4027681)

0.00

0.0

1.1

—

(3006093) Chlamydia trachomatis DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.3

—

(3011371) Neisseria gonorrhoeae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.3

—

(3026389) Candida sp identified in Specimen by Organism specific culture

0.00

0.0

1.1

—

(3053028) Streptococcus sp identified in Specimen by Organism specific culture

0.00

0.0

1.0

—

(3003265) Liver kidney microsomal Ab [Titer] in Serum by Immunofluorescence

0.00

0.0

1.0

—

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

0.93

0.00

2.7

3.4

—

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

0.00

0.0

1.0

—

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

0.00

0.0

5.0

—

25.1

—

(3009340) Metanephrine [Moles/volume] in Serum or Plasma

0.00

0.0

1.2

—

(3044290) Cell count panel - Cerebral spinal fluid

0.00

0.0

1.1

—

(40758310) Human epididymis protein 4 [Moles/volume] in Serum or Plasma

0.00

0.0

1.1

—

66.8

—

(3040363) Hepatitis A virus IgG Ab [Presence] in Serum by Immunoassay

0.00

0.0

1.0

—

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

0.00

0.0

1.4

—

(3011288) Drugs identified in Urine by Screen method

0.00

0.0

1.0

—

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

0.00

0.0

1.9

—

(40760888) Immunoglobulin light chains.free panel - Serum

0.00

0.0

1.0

—

(40760847) Basement membrane Ab [Titer] in Serum by Immunofluorescence

0.00

0.0

1.4

—

(3007778) Kappa light chains/Lambda light chains [Mass Ratio] in Serum

0.00

0.0

1.1

—

(42870308) Desmosome IgG Ab [Titer] in Serum by Immunofluorescence

0.00

0.0

1.4

—

(3037522) Nuclear Ab [Titer] in Serum

0.84

0.00

1.2

1.4

—

675.6

—

(3046294) Neutrophil cytoplasmic Ab.classic [Titer] in Serum

0.00

0.0

1.2

—

Mortality – FinRegistry

↥

This endpoint is excluded (different definition than used in FinnGen).

Relationships between endpoints

↥

Index endpoint: C3_COLORECTAL_SQUAM_EXALLC – Colorectal squamous cell carcinoma, excluding all cancers (controls excluding all cancers)

GWS hits: -

This endpoint is excluded (different definition than used in FinnGen).

≡ 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

Colorectal squamous cell carcinoma, excluding all cancers (controls excluding all cancers)

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 Colorectal squamous cell carcinoma, excluding all cancers (controls excluding all cancers) (C3_COLORECTAL_SQUAM_EXALLC)

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