Colorectal squamous cell carcinoma

C3_COLORECTAL_SQUAM

No definition available.

Endpoint definition

↥

Report an error or suggest an improvement for this endpoint codes

Endpoint definition steps	FinnGen
Phenotype data	519972
1. Apply sex-specific rule None	519972
2. Check conditions None	519972
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.	42
4. Check minimum number of events None	42
5. Include endpoints None	42
6. Filter based on genotype QC (FinnGen only)	40

Control definitions (FinnGen only)

Control exclude: C3_CANCER, C3_CANCER_WIDE

Extra metadata

Level in the ICD hierarchy: C
First used in FinnGen datafreeze: DF9

NAME	C3_COLORECTAL_SQUAM
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
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 based on the number of shared cases.

Similar with more cases:

Similar with less cases:

None

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 from FinRegistry analyses (omitted endpoint).

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	40	33	7
Unadjusted period prevalence (%)	0.01	0.01	0.00
Median age at first event (years)	62.58	60.71	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

↥

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

↥

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

69.06

26.61

3.2

1.5

2.14

3.36

ug/l

0.72

(3022145) Colonoscopy Study observation

22.71

24.52

2.8

1.1

—

(4035726) Immunohistochemistry procedure

33.06

15.32

1.4

1.0

—

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

140

7.30

7.82

8.2

4.1

35.32

36.24

g/l

0.54

132

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

5.95

7.16

2.3

2.0

0.81

0.84

mmol/l

0.46

(3023368) Bacteria identified in Blood by Culture

5.50

6.99

5.9

3.9

—

(40768804) Tissue Pathology biopsy report

134

5.34

6.10

3.4

1.6

—

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

184

4.69

4.80

10.5

3.3

7.90

9.88

umol/l

2.52

169

(3033658) Prothrombin time (PT) actual/Normal

4.06

4.60

3.4

3.5

100.58

92.49

0.65

(40758558) Short blood count panel - Blood

3.99

4.50

9.6

4.7

—

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

109

3.80

4.34

7.8

2.1

2.34

2.36

mmol/l

0.29

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

105

3.63

4.07

3.4

3.0

—

(3030467) Casts [#/volume] in Urine by Automated count

3.64

4.00

3.4

2.9

0.08

0.60

e6/l

1.83

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

6.21

3.98

1.2

1.3

—

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

3.85

3.84

2.5

2.8

2.71

5.32

e6/l

—

(3002582) Erythrocytes [#/volume] in Urine

3.47

3.77

3.7

2.8

12.40

727.68

e6/l

0.51

(36304419) Bacteria [Presence] in Urine

3.21

3.26

3.5

2.8

—

(3002256) Pathology report gross observation

3.89

2.92

2.0

1.1

—

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

3.77

2.83

6.1

7.6

106.09

103.39

mmol/l

1.17

(3022217) INR in Platelet poor plasma by Coagulation assay

141

2.91

2.82

5.3

9.6

1.04

1.26

inr

—

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

2.97

2.70

2.6

2.0

—

(3018095) Leukocytes [#/volume] in Urine

110

2.82

2.69

4.6

3.3

11.68

43.64

e6/l

0.75

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

4.11

2.67

1.6

2.1

—

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

4.11

2.67

1.6

2.1

—

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

5.02

2.60

6.1

10.3

24.66

25.77

mmol/l

—

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

3.45

2.59

2.5

1.9

—

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

2.89

2.40

2.1

2.6

0.17

1.19

e6/l

—

(40760892) CBC W Ordered Manual Differential panel - Blood

150

2.65

2.38

5.7

5.9

—

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

142

2.61

2.34

3.6

2.3

—

(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

4.81

2.23

2.2

1.9

—

(3044640) Blood type and Crossmatch panel - Blood

2.53

2.13

3.1

1.9

—

(3037467) Urinalysis macro (dipstick) panel - Urine

238

2.80

2.10

5.7

4.0

—

(3007853) Bacteria identified in Skin by Aerobe culture

3.19

2.08

1.8

1.6

—

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

4.19

2.01

8.3

8.7

—

(3025941) Bacteria identified in Stool by Culture

3.93

1.91

1.0

1.2

—

(3013115) Eosinophils [#/volume] in Blood

171

2.37

1.89

4.0

5.5

0.15

0.18

e9/l

0.42

152

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

2.44

1.83

1.8

1.3

—

(3006315) Basophils [#/volume] in Blood

166

2.25

1.72

3.3

5.4

0.02

0.04

e9/l

1.53

145

(3001604) Monocytes [#/volume] in Blood

166

2.25

1.72

3.3

5.4

0.55

0.54

e9/l

0.04

146

(3019198) Lymphocytes [#/volume] in Blood

167

2.23

1.68

3.6

5.4

1.34

1.81

e9/l

2.66

152

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

2.40

1.57

5.0

2.1

2.45

2.43

mmol/l

0.24

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

2.79

1.53

7.3

9.9

110.43

122.18

g/l

—

(3000492) Spirometry study

3.00

1.49

1.0

1.2

—

(3021589) Normoblasts [#/volume] in Blood

137

2.07

1.44

15.8

8.5

0.00

e9/l

-0.00

108

(3014007) Fractional oxyhemoglobin in Arterial blood

3.19

1.40

6.0

13.3

97.40

93.94

—

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

2.66

1.38

1.1

1.5

—

(3003396) Base excess in Arterial blood by calculation

2.58

1.36

7.1

8.7

0.08

1.93

mmol/l

—

(3006217) Methemoglobin/Hemoglobin.total in Arterial blood

3.01

1.32

6.0

12.4

0.42

0.71

—

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

3.01

1.32

1.0

1.1

—

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

3.01

1.32

1.8

1.6

—

(3028653) Carboxyhemoglobin/Hemoglobin.total in Arterial blood

3.01

1.32

6.0

12.4

0.88

1.64

—

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

111

1.89

1.10

4.6

2.2

55.65

55.63

u/l

0.00

101

(36660697) Celiac disease serology panel - Serum

0.00

1.02

0.0

1.2

—

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

143

1.76

0.95

2.2

1.9

87.06

95.84

pmol/l

—

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

1.90

0.94

1.3

1.2

—

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

2.09

0.88

1.3

2.1

—

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

118

1.74

0.88

2.6

2.7

23.35

30.86

u/l

1.36

109

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

2.22

0.77

1.6

2.5

—

(3000991) Gas panel - Venous blood

2.22

0.77

6.4

10.9

—

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

200

1.62

0.72

3.0

2.8

—

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

0.00

0.62

0.0

1.2

—

(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

1.0

—

(21494755) Public health laboratory ask at order entry panel

1.83

0.61

1.0

1.4

—

(3048689) Calprotectin [Mass/mass] in Stool

1.59

0.51

1.3

1.5

92.86

97.53

ug/g

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

342

0.64

0.49

4.0

6.2

37.82

40.44

mmol/mol

1.20

318

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

1.44

0.44

1.5

1.2

—

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

0.00

0.42

0.0

1.2

—

(3041096) Erythrocytes [Presence] in Urine by Automated

1.45

0.39

4.4

3.6

—

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

356

0.76

0.30

4.1

4.8

5.71

5.93

mmol/l

0.88

324

(3019800) Troponin T.cardiac [Mass/volume] in Serum or Plasma

147

0.74

0.30

4.6

3.6

15.57

21.99

ng/l

—

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

192

1.31

0.30

6.9

4.4

6.90

6.71

mmol/l

0.17

177

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

1.28

0.23

5.2

6.0

—

(3013512) EKG study

1.30

0.23

3.6

3.5

—

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

0.00

0.21

0.0

1.7

—

(3010838) Calcium [Moles/time] in 24 hour Urine

0.00

0.21

0.0

1.2

—

4.64

—

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

0.00

0.21

0.0

1.1

—

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

0.00

0.21

0.0

1.2

—

68.20

—

(3043409) Potassium [Moles/volume] in Arterial blood

0.00

0.21

0.0

3.4

—

3.71

—

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

0.00

0.21

0.0

3.6

—

1.13

—

(3020891) Body temperature

0.00

0.21

0.0

3.3

—

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

119

1.26

0.21

1.5

1.9

104.00

116.81

u/l

0.16

111

(3019832) Treponema pallidum Ab [Presence] in Serum

0.00

0.21

0.0

1.2

—

(1002224) Polysomnography panel

0.00

0.20

0.0

1.1

—

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

0.00

0.20

0.0

1.1

—

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

0.77

0.17

2.7

3.2

—

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

0.73

0.17

1.3

1.2

2.02

2.40

g/l

—

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

343

0.82

0.17

3.0

4.3

1.22

1.27

mmol/l

0.21

312

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

124

1.19

0.13

3.9

—

(3002385) Erythrocyte distribution width [Ratio]

305

1.21

0.12

34.9

14.2

14.41

15.03

0.49

299

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

1.21

0.12

1.4

1.8

3.86

0.72

mg/l

—

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

333

0.84

0.10

4.7

5.0

1.89

5.56

mu/l

0.50

302

(3037522) Nuclear Ab [Titer] in Serum

0.81

0.09

1.2

1.4

—

650.53

—

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

351

1.18

0.08

3.2

4.8

1.63

1.58

mmol/l

0.27

323

(1761868) Lipid panel - Serum or Plasma

120

0.89

0.05

1.8

3.0

—

(3044889) 12 lead EKG panel

251

1.09

0.04

3.9

3.7

—

(3026008) Bacteria identified in Urine by Culture

108

1.03

0.00

4.5

2.9

—

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

0.93

0.00

1.6

2.3

27604.00

9730.82

umol/l

—

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

0.00

-0.00

0.0

2.3

—

1.38

—

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

0.00

-0.00

0.0

2.3

—

4.04

—

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

0.00

-0.00

0.0

1.0

—

(3002079) Sodium [Moles/time] in 24 hour Urine

0.00

-0.00

0.0

1.2

—

125.78

—

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

362

0.96

-0.00

3.5

5.4

2.97

2.75

mmol/l

0.70

332

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

0.00

-0.00

0.0

1.3

—

(3001788) Aldosterone [Moles/volume] in Serum or Plasma

0.00

-0.00

0.0

1.0

—

304.60

—

(40758895) Direct antiglobulin test.complement C3d specific reagent [Presence] on Red Blood Cells

0.00

-0.00

0.0

3.0

—

(40760888) Immunoglobulin light chains.free panel - Serum

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

3.2

—

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

0.00

-0.00

0.0

1.4

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.2

—

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

0.00

-0.00

0.0

2.3

—

106.71

—

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

0.00

-0.00

0.0

1.1

—

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

354

1.12

-0.00

3.2

4.9

5.02

4.76

mmol/l

0.73

328

(3011288) Drugs identified in Urine by Screen method

0.00

-0.00

0.0

1.0

—

(3023183) Ammonium ion [Moles/volume] in Plasma

0.00

-0.00

0.0

1.8

—

45.17

—

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

0.00

-0.00

0.0

1.4

—

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

0.00

-0.00

0.0

1.0

—

(3042111) Morphology [Interpretation] in Bone marrow Narrative

0.00

-0.00

0.0

2.0

—

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

0.00

-0.00

0.0

2.3

—

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

0.00

-0.00

0.0

1.0

—

(21494890) Protein electrophoresis panel - 24 hour Urine

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.3

—

(3007798) IgG/Albumin [Mass Ratio] in Cerebral spinal fluid

0.00

-0.00

0.0

1.3

—

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

0.00

-0.00

0.0

1.3

—

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

0.00

-0.00

0.0

1.3

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.3

—

(3000855) Microscopic observation [Identifier] in Vaginal fluid by Gram stain

0.00

-0.00

0.0

1.0

—

(40758897) Direct antiglobulin test.IgG specific reagent [Presence] on Red Blood Cells

0.00

-0.00

0.0

3.0

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

2.3

—

8.30

—

(3044927) Protein electrophoresis panel - Urine

0.00

-0.00

0.0

1.2

—

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

0.00

-0.00

0.0

1.4

—

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

0.00

-0.00

0.0

1.0

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: C3_COLORECTAL_SQUAM – Colorectal squamous cell carcinoma

GWS hits: -

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

≡ Risteys

R13

FinnGen R12 + FinRegistry

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

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 (C3_COLORECTAL_SQUAM)

Summary Statistics

-FinRegistry-

-FinnGen-

Key figures

-FinnGen-

Age distribution of first events

-FinnGen-

Year distribution of first events

-FinnGen-

Cumulative Incidence Function

CodeWAS

LabWAS

Mortality – FinRegistry

Relationships between endpoints