Benign neoplasm: Floor of mouth

CD2_BENIGN_FLOOROFMOUTH

oral cavity cancer: A primary or metastatic malignant neoplasm involving the oral cavity. The majority are squamous cell carcinomas.

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Endpoint definition

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Report an error or suggest an improvement for this endpoint codes

Endpoint definition steps	FinnGen
Phenotype data	557745
1. Apply sex-specific rule None	557745
2. Check conditions None	557745
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — D10.2& Hospital discharge: ICD-9 — 2103 Hospital discharge: ICD-8 — 2103 Cause of death: ICD-10 — D10.2& Cause of death: ICD-9 — 2103 Cause of death: ICD-8 — 2103 2 out of 7 registries used, show all original rules.	148
4. Check minimum number of events None	148
5. Include endpoints None	148
6. Filter based on genotype QC (FinnGen only)	128

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: DF2
Parent code in ICD-10: D10
Name in latin: Neoplasma benignum basis oris

NAME	CD2_BENIGN_FLOOROFMOUTH
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D102
HD_ICD_9	2103
HD_ICD_8	2103
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	D102
COD_ICD_9	2103
COD_ICD_8	2103
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

Similar endpoints

↥

List of similar endpoints to Benign neoplasm: Floor of mouth based on the number of shared cases.

Similar with more cases:

Similar with less cases:

None

Case counts by codes

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FinnGen case counts by registry codes:

Upset plot

Full data table

Summary Statistics

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-FinRegistry-

Key figures

	All	Female	Male
Number of individuals
Whole population	1059	557	490
Only index persons	897	489	408
Unadjusted period prevalence (%)
Whole population	0.01	0.02	0.01
Only index persons	0.02	0.02	0.02
Median age at first event (years)
Whole population	53.91	54.65	52.78
Only index persons	51.89	53.01	50.55

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	128	69	59
Unadjusted period prevalence (%)	0.03	0.02	0.03
Median age at first event (years)	54.07	55.20	52.74

-FinRegistry-

Age distribution of first events

-FinnGen-

Age distribution of first events

-FinRegistry-

Year distribution of first events

-FinnGen-

Year distribution of first events

-FinRegistry-

Cumulative Incidence Function

-FinnGen-

Cumulative Incidence Function

No data

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.

Matched cohort

Matched cases
134: Matched controls
1340

Code

Vocabulary

Description

Odds Ratio

-log₁₀(p)

N matched cases

N matched controls

D10.2

ICD-10 Finland

Benign neoplasm: Floor of mouth

+∞

145.7

112

EJA10

NOMESCO Finland

Biopsy of tongue or floor of mouth

54.0

28.3

EJB30

NOMESCO Finland

Excision of tumor or other lesion of floor of the mouth

219.5

19.1

21030

ICD-8 Finland

Benign neoplasm of buccal cavity and pharynx, Floor of mouth

+∞

15.9

EP1AE

NOMESCO Finland

Neck ultrasound examination

6.4

11.6

ECA20

NOMESCO Finland

Biopsy of gingiva

39.6

9.2

PJD71

NOMESCO Finland

Extended sparing excision of cervical lymph nodes

84.6

7.5

2103A

ICD-9 Finland

Benign neoplasm of lip, oral cavity and pharynx, Floor of mouth

+∞

7.4

EP1CG

NOMESCO Finland

Extensive MRI examination of soft tissue of neck with high intesity magnet

73.2

6.5

WZC00

NOMESCO Finland

Treatment plan or consultation

2.5

6.3

334

LabWAS

↥

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

(40768804) Tissue Pathology biopsy report

448

2.46

6.09

2.8

2.1

—

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

502

2.00

3.76

2.7

2.5

68.93

75.98

nmol/l

1.53

446

(3006504) Eosinophils/Leukocytes in Blood

561

1.99

3.69

5.4

6.8

2.32

2.75

1.15

531

(3019069) Monocytes/Leukocytes in Blood

562

1.99

3.66

5.4

6.8

8.43

8.66

0.35

535

(42870588) Differential panel, method unspecified - Blood

397

1.98

3.65

4.5

6.3

—

(3023368) Bacteria identified in Blood by Culture

332

1.99

3.51

5.1

4.9

—

(3022096) Basophils/Leukocytes in Blood

559

1.95

3.47

5.5

6.8

0.68

0.67

0.05

526

(3013650) Neutrophils [#/volume] in Blood by Automated count

672

1.97

3.34

10.8

11.3

4.34

4.19

e9/l

0.25

595

(3018010) Neutrophils/Leukocytes in Blood

564

1.92

3.33

5.4

6.6

57.64

58.36

0.17

539

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

265

1.98

3.22

2.6

2.3

—

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

207

2.01

2.97

3.5

4.1

122.04

326.87

ng/l

0.73

172

(3013115) Eosinophils [#/volume] in Blood

630

1.83

2.87

7.0

6.9

0.18

0.19

e9/l

0.37

564

(3001604) Monocytes [#/volume] in Blood

613

1.76

2.56

5.7

6.8

0.62

0.58

e9/l

0.58

539

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

3.63

2.53

1.0

1.2

—

(3006315) Basophils [#/volume] in Blood

616

1.74

2.49

5.7

6.8

0.04

e9/l

0.08

539

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

106

888

1.93

2.46

9.4

8.6

81.82

78.15

u/l

0.21

101

846

(3019198) Lymphocytes [#/volume] in Blood

622

1.71

2.35

5.8

6.8

2.13

1.79

e9/l

0.56

562

(1002224) Polysomnography panel

2.49

2.31

1.1

—

(3022948) Iron [Moles/volume] in Serum or Plasma

194

1.85

2.23

2.4

2.8

13.66

13.00

umol/l

0.17

181

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

2.84

2.12

1.6

2.5

—

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

2.84

2.12

1.6

2.2

—

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

2.17

2.06

1.4

1.7

—

(3011960) Natriuretic peptide B [Mass/volume] in Serum or Plasma

2.29

1.96

2.6

2.3

148.69

254.99

ng/l

0.77

(3000991) Gas panel - Venous blood

101

2.03

1.92

11.1

10.5

—

(3044640) Blood type and Crossmatch panel - Blood

367

1.63

1.92

2.8

2.4

—

(3022145) Colonoscopy Study observation

125

1.91

1.86

1.7

1.4

—

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

3.44

1.76

1.3

—

(4035726) Immunohistochemistry procedure

1.99

1.76

1.7

1.3

—

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

116

1041

1.85

1.64

6.4

5.3

1.94

1.87

mu/l

0.22

107

953

(3005785) Creatine kinase.MB [Mass/volume] in Serum or Plasma

2.00

1.63

1.6

2.4

2.97

6.97

ug/l

2.19

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

2.43

1.63

4.1

2.5

1.29

1.49

mg/l

—

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

2.51

1.56

1.5

1.4

—

(3042936) Bacteria identified in Isolate by Culture

173

1.70

1.56

2.1

1.8

—

(3016417) Amylase.pancreatic [Enzymatic activity/volume] in Serum or Plasma

117

1.83

1.55

2.1

3.0

41.85

32.09

u/l

0.49

(3032080) INR in Blood by Coagulation assay

534

1.51

1.54

19.6

13.9

1.35

1.24

inr

0.72

436

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

375

1.53

3.8

3.5

2.37

2.35

mmol/l

0.55

340

(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

2.01

1.39

1.8

—

(3008486) Thyroxine (T4) free [Moles/volume] in Serum or Plasma

860

1.52

1.32

4.8

4.4

14.94

14.89

pmol/l

0.07

780

(3021589) Normoblasts [#/volume] in Blood

527

1.45

1.32

10.1

12.6

0.00

e9/l

0.50

435

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

2.84

1.29

1.8

1.1

—

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

2.84

1.29

1.8

1.1

—

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

509

1.45

1.29

2.4

2.0

84.90

97.61

pmol/l

1.70

254

(3007628) Bicarbonate [Moles/volume] standard in Venous blood

1.95

1.29

3.4

4.3

25.45

24.22

mmol/l

0.43

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

2.30

1.26

1.9

1.3

9.85

9.57

u/l

—

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

530

1.44

1.26

2.9

2.8

—

estimate

—

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

261

1.52

1.26

1.7

1.05

1.44

mg/l

0.54

211

(3022621) pH of Urine by Test strip

1.80

1.24

2.2

2.3

5.89

6.08

—

(3019309) Folate [Moles/volume] in Red Blood Cells

202

1.56

1.21

1.6

1.7

800.92

1195.75

nmol/l

2.28

152

(40758558) Short blood count panel - Blood

363

1.45

1.21

7.7

6.5

—

(3000494) Fungus identified in Specimen by Culture

152

1.62

1.19

1.4

1.5

—

(3006418) Campylobacter sp identified in Tissue by Organism specific culture

2.40

1.14

1.0

1.2

—

(3014765) Yersinia sp identified in Stool by Organism specific culture

2.33

1.12

1.0

1.2

—

(42529406) Shigella sp [Presence] in Stool by Culture

2.33

1.12

1.0

1.2

—

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

697

1.41

1.12

6.8

5.1

6.25

6.59

mmol/l

1.20

650

(3010421) pH of Blood

2.01

1.11

3.5

3.4

7.39

7.42

—

(40761511) CBC panel - Blood by Automated count

123

1152

1.82

1.09

17.1

14.7

—

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

2.00

1.09

1.0

—

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

2.02

1.06

1.8

1.6

—

(3036086) Jo-1 extractable nuclear Ab [Units/volume] in Serum by Immunoassay

2.12

1.04

1.3

1.2

—

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

119

1110

1.64

1.00

22.7

16.8

24.30

22.20

mg/l

0.35

107

915

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

547

1.37

0.99

8.9

8.5

1.21

mmol/l

0.22

474

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

2.00

0.98

2.0

1.9

199.71

193.14

—

(3012544) pH of Venous blood

118

1.61

0.97

3.3

4.3

7.38

0.02

(3018095) Leukocytes [#/volume] in Urine

452

1.37

0.96

5.5

4.2

58.97

54.41

e6/l

0.05

320

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

0.00

0.96

0.0

1.5

—

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

0.00

0.96

0.0

2.0

—

(40768797) Stomach Pathology biopsy report

169

1.51

0.96

1.5

1.3

—

(40765161) Human bocavirus DNA [Presence] in Specimen by NAA with probe detection

2.28

0.95

1.0

1.8

—

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

198

1.46

0.89

4.3

3.0

0.80

0.73

e6/l

0.07

108

(3041942) Cyclic citrullinated peptide Ab [Units/volume] in Serum

207

1.45

0.89

1.3

0.80

8.07

u/ml

—

(3014162) Mycobacterium tuberculosis DNA [Presence] in Specimen by NAA with probe detection

1.91

0.89

2.4

2.6

—

(3007853) Bacteria identified in Skin by Aerobe culture

138

1.53

0.88

2.0

1.7

—

(1761868) Lipid panel - Serum or Plasma

492

0.73

0.86

3.3

—

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

182

1.46

0.86

4.4

3.2

1.40

2.77

e6/l

—

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

1.91

0.83

2.3

1.3

—

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

423

1.33

0.82

4.9

3.4

—

(40764999) Glomerular filtration rate [Volume Rate/Area] in Serum, Plasma or Blood by Creatinine-based formula (CKD-EPI)/1.73 sq M

116

1087

1.50

0.82

22.4

16.2

81.00

80.28

ml/min/173m2

0.14

109

1001

(3019977) pH of Arterial blood

141

1.49

0.80

11.5

8.6

7.43

7.42

—

(3049717) Cytology report of Urine Cyto stain

1.71

0.80

3.0

2.2

—

(40760892) CBC W Ordered Manual Differential panel - Blood

284

1.37

0.80

5.2

6.3

—

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

1.63

0.78

4.0

4.9

122.24

84.98

ng/l

0.49

(3018677) aPTT in Platelet poor plasma by Coagulation assay

177

1.43

0.78

4.3

1.8

29.81

29.17

0.18

171

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

195

1.41

0.77

2.2

2.0

—

(3018418) pH of Serum or Plasma

351

1.33

0.77

4.0

4.5

7.40

7.39

0.15

250

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

1.71

0.76

2.2

1.6

—

(3020682) Albumin/Creatinine [Ratio] in Urine

380

1.32

0.75

4.0

4.1

12.25

9.47

mg/mmol

0.22

251

(3000492) Spirometry study

101

1.55

0.74

1.5

—

(3016921) Smith extractable nuclear Ab [Units/volume] in Serum

1.84

0.74

1.3

1.2

—

3.77

—

(3026782) Osmolality of Urine

242

1.37

0.73

4.3

3.0

456.68

555.17

mosm/kgh2o

1.91

205

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

2.04

0.73

4.0

3.1

11.36

10.00

pmol/l

—

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

127

1.48

0.72

3.9

2.1

388.39

372.77

nmol/l

0.20

115

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

115

1083

1.44

0.71

4.9

5.1

6.18

5.92

mmol/l

1.09

102

995

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

119

1.49

0.71

11.4

7.8

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

113

1062

1.41

0.70

5.9

6.4

39.58

39.54

mmol/mol

0.01

106

999

(4010399) Spirometry for bronchospasm with prolonged evaluation after bronchodilator

1.55

0.70

1.6

1.4

—

(3021879) Hepatitis B virus core Ab [Presence] in Serum

1.55

0.70

1.1

1.6

—

(3000515) Antithrombin actual/normal in Platelet poor plasma by Chromogenic method

1.70

0.69

2.1

1.6

94.86

93.10

—

(3015235) Bicarbonate [Moles/volume] in Capillary blood

1.70

0.69

4.7

2.4

24.50

24.18

mmol/l

—

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

1.59

0.68

17.3

8.0

24.86

24.79

mmol/l

0.02

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

129

1.46

0.68

3.6

3.9

—

(3013512) EKG study

395

1.29

0.67

4.1

3.6

—

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

340

1.30

0.65

5.4

3.1

0.60

0.34

e6/l

0.45

244

(3024928) Oxygen saturation in Venous blood

1.75

0.64

3.8

2.8

62.10

60.91

—

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

332

1.29

0.63

3.2

3.1

343.59

347.52

umol/l

0.07

288

(3012516) Albumin [Mass/volume] in Urine

371

1.28

0.61

3.5

3.4

44.10

58.46

mg/l

0.30

249

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.61

0.0

1.2

—

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

168

1.37

0.60

13.6

8.0

102.91

104.54

mmol/l

0.86

168

(3017895) Helicobacter pylori Ab [Units/volume] in Serum

1.75

0.58

1.3

1.5

—

16.87

—

(3000850) Epithelial cells [#/volume] in Urine

289

1.29

0.57

4.1

2.7

4.82

5.64

e6/l

0.29

258

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

118

1126

1.40

0.57

5.7

5.8

2.69

2.71

mmol/l

0.10

106

1043

(3002582) Erythrocytes [#/volume] in Urine

403

1.26

0.57

5.2

3.4

51.63

197.73

e6/l

0.43

309

(36304419) Bacteria [Presence] in Urine

328

1.27

0.55

5.4

3.0

—

estimate

—

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

1.61

0.55

1.0

1.8

—

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

282

1.28

0.53

2.7

4.0

—

0.40

—

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

804

1.23

0.51

2.8

3.3

42.95

49.83

u/l

0.56

759

(3026008) Bacteria identified in Urine by Culture

351

1.24

0.50

4.1

3.4

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

1.49

0.50

1.4

1.3

—

(3004248) Sex hormone binding globulin [Moles/volume] in Serum or Plasma

1.55

0.49

2.3

2.0

39.29

41.11

nmol/l

—

(3024889) Methemoglobin/Hemoglobin.total in Venous blood

1.51

0.48

3.1

2.4

0.54

0.61

—

(3009508) Creatinine [Moles/volume] in Urine

391

1.23

0.48

3.5

3.2

6.12

8.06

mmol/l

2.88

331

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

480

0.82

0.46

3.4

4.2

0.00

0.02

estimate

0.50

125

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

1.39

0.45

2.6

1.9

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

1.46

0.43

3.1

2.4

1.26

1.25

—

(3004716) Salmonella sp identified in Stool by Organism specific culture

1.40

0.42

1.0

1.3

—

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

300

1.23

0.42

1.4

1.5

—

(3002256) Pathology report gross observation

151

1.30

0.41

1.6

1.2

—

(40766183) Gliadin peptide IgA Ab [Units/volume] in Serum by Immunoassay

0.00

0.41

0.0

1.1

—

1.50

—

(3023511) Choriogonadotropin [Units/volume] in Urine

0.00

0.41

0.0

1.7

—

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

0.00

0.41

0.0

1.2

—

(37019628) Gastrointestinal bacterial pathogens panel - Stool by NAA with probe detection

1.49

0.41

1.2

1.5

—

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

161

1.28

0.40

1.3

1.4

—

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

476

1.19

0.39

3.3

3.9

21.67

35.87

ng/l

0.97

327

(3029937) Albumin [Presence] in Urine by Test strip

370

0.82

0.39

3.3

4.2

0.00

0.01

estimate

—

135

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

1.40

0.38

1.0

1.6

—

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

110

1056

1.23

0.36

4.3

1.42

1.31

mmol/l

0.69

965

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

115

1109

1.26

0.36

4.9

5.1

4.62

4.64

mmol/l

0.08

106

1029

(3041096) Erythrocytes [Presence] in Urine by Automated

355

0.84

0.34

3.4

3.7

0.00

estimate

—

117

(3008898) HLA-B27 [Presence]

1.32

0.33

1.2

1.1

—

(46236952) Glomerular filtration rate [Volume Rate/Area] in Serum, Plasma or Blood by Creatinine-based formula (MDRD)/1.73 sq M

1.33

0.33

3.3

3.4

76.67

63.56

ml/min/173m2

—

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

111

1.29

0.31

2.2

3.0

0.15

0.19

e6/l

0.13

105

(40768443) Skin Pathology biopsy report

1.29

0.30

1.4

1.2

—

(3020891) Body temperature

1.29

0.30

4.3

4.4

36.79

36.95

°c

—

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

141

1.24

0.27

5.5

4.5

26.10

30.38

—

(3019060) Gas panel - Arterial blood

1.23

0.26

4.3

4.2

—

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

209

1.18

0.25

1.3

1.6

—

(43054914) Glucose tolerance 2 hours panel - Serum or Plasma

115

1.24

0.24

1.4

1.9

—

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

1.36

0.24

1.0

1.4

—

(36304997) Mycobacterium tuberculosis stimulated gamma interferon release by CD4+ and CD8+ T-cells [Units/volume] in Blood

1.29

0.23

1.4

1.5

—

0.14

—

(3049506) Microalbumin [Mass/time] in Urine collected for unspecified duration

0.00

0.21

0.0

2.2

—

(40764127) Haemophilus influenzae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.21

0.0

1.5

—

(3006257) Acetylcholine receptor Ab [Moles/volume] in Serum

0.00

0.21

0.0

1.2

—

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

0.00

0.21

0.0

1.1

—

(3044242) Glucose [Moles/volume] in Arterial blood

0.00

0.21

0.0

7.4

—

8.57

—

(4281824) Cell count and differential, peritoneal fluid

0.00

0.21

0.0

1.0

—

(3017817) Protein [Mass] in Urine collected for unspecified duration

0.00

0.21

0.0

5.1

—

693.27

—

(3019897) Erythrocyte [DistWidth] in Red Blood Cells by Automated count

0.00

0.21

0.0

3.1

—

13.61

—

(21494434) Karyotype in Bone marrow

0.00

0.21

0.0

1.1

—

(40768441) Liver Pathology biopsy report

0.00

0.21

0.0

1.2

—

(3037875) Bordetella parapertussis DNA [Presence] in Specimen by NAA with probe detection

0.00

0.21

0.0

1.5

—

(3038177) Helicobacter pylori Ab [Presence] in Serum

0.00

0.21

0.0

1.0

—

(3004588) Protein electrophoresis panel - Serum or Plasma

1.27

0.21

1.9

2.3

—

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

112

0.79

0.21

1.9

2.0

—

(4268621) Lupus anticoagulant assay

0.00

0.21

0.0

1.8

—

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

0.00

0.21

0.0

1.0

—

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

0.00

0.21

0.0

1.5

—

(4024509) Urine culture

1.23

0.20

1.2

1.9

—

(3041423) Sjogrens syndrome-A extractable nuclear 60kD Ab [Units/volume] in Serum

0.00

0.20

0.0

1.1

—

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

330

1.12

0.19

2.9

3.4

—

0.00

—

(3015736) pH of Urine

507

1.11

0.19

2.7

3.9

6.20

6.16

0.09

282

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

1.12

0.16

1.3

—

27.93

—

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

276

1.11

0.15

1.3

0.86

1.59

u/ml

—

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

732

1.09

0.15

3.0

3.1

—

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

141

1.15

0.14

2.1

1.8

—

(3019150) Specific gravity of Urine by Refractometry

272

0.90

0.13

2.8

4.3

1.02

kg/l

0.11

175

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

152

1.14

0.13

2.5

1.7

—

(3019832) Treponema pallidum Ab [Presence] in Serum

115

0.86

0.11

2.2

1.8

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

115

1.14

0.11

1.2

1.6

—

(36660697) Celiac disease serology panel - Serum

1.16

0.10

1.4

1.1

—

(3003031) Transferrin.carbohydrate deficient.disialo/Transferrin.total in Serum or Plasma

134

0.89

0.09

2.3

1.7

1.62

1.40

0.53

116

(3034780) Angiotensin converting enzyme [Enzymatic activity/volume] in Serum or Plasma

1.14

0.09

1.3

2.0

44.78

43.05

u/l

—

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

112

1104

1.09

0.09

5.0

5.1

1.42

1.46

mmol/l

0.46

101

1015

(21494755) Public health laboratory ask at order entry panel

113

0.88

0.08

1.1

1.4

—

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

1.04

0.08

1.3

2.1

1.44

1.51

g/l

—

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

1.04

0.08

2.3

2.9

—

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

156

1.10

0.08

1.5

1.6

—

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

123

0.88

0.08

1.7

2.1

—

(3013707) Erythrocyte sedimentation rate [Velocity] in Red Blood Cells by Westergren method

873

1.06

0.07

4.6

4.5

12.57

11.86

mm/h

0.23

804

(3013603) Prostate specific Ag [Mass/volume] in Serum or Plasma

384

1.06

0.07

6.0

5.1

1.98

1.88

ug/l

0.11

340

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

226

1.08

0.07

1.6

1.9

—

(40761536) Microorganisms panel - Urine sediment

103

0.86

0.06

6.3

3.9

—

(3023520) Reticulocytes [#/volume] in Blood

109

1.11

0.06

2.5

3.8

50.37

72.49

e9/l

—

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

250

1.05

0.03

1.4

1.5

2.44

2.71

g/l

0.27

153

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

629

0.97

0.02

3.5

4.3

0.00

estimate

-0.00

142

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

639

0.97

0.02

3.5

4.3

0.00

estimate

-0.00

137

(3019284) Hepatitis B virus surface Ag [Presence] in Serum

193

1.04

0.01

1.5

1.6

—

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

632

0.99

0.00

3.5

4.3

0.00

estimate

-0.00

142

(3017181) Myelocytes/Leukocytes in Blood

103

0.97

0.00

3.5

5.9

0.80

0.68

—

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

315

0.98

0.00

5.2

4.5

23.42

22.40

0.17

146

(3005013) Prostate Specific Ag Free [Mass/volume] in Serum or Plasma

242

0.99

0.00

4.2

2.9

0.70

0.74

ug/l

0.12

153

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

514

0.99

0.00

1.5

1.9

1.58

1.40

mmol/l

0.70

428

(3008536) Aspergillus sp Ab [Presence] in Serum

0.00

0.0

1.6

—

(44816893) Food Allergen Mix 50 (Kiwi+Pineapple+Banana+Mango) IgE Ab [Units/volume] in Serum by Multidisk

0.00

0.0

1.0

—

0.30

—

(3007821) Glucose [Moles/volume] in Serum or Plasma --baseline

0.00

0.0

1.2

—

6.53

—

(1617658) Protocol used for examination of sentinel lymph nodes

0.00

0.0

1.0

—

(3017569) Oxygen content in Arterial blood

0.00

0.0

8.6

—

15.72

—

(3020013) Alkaline phosphatase.intestinal [Enzymatic activity/volume] in Serum or Plasma

0.00

0.0

1.4

—

11.30

—

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

0.00

0.0

3.0

—

(4211845) Urine protein measurement

0.00

0.0

1.3

—

(42868414) European tick borne encephalitis virus IgM Ab [Presence] in Serum by Immunoassay

0.00

0.0

1.3

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

2.2

—

(3028286) Albumin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

2.6

—

43.36

—

(40758292) HTLV I+II Ab panel - Serum

0.00

0.0

1.8

—

(3021197) Magnesium Ionized [Moles/volume] in Serum or Plasma

0.00

0.0

2.4

—

0.60

—

(3014891) Appearance of Pleural fluid

0.00

0.0

1.2

—

(3016724) Homocysteine [Moles/volume] in Serum or Plasma

0.00

0.0

1.4

—

11.00

—

(3011166) Borrelia burgdorferi Ab [Presence] in Cerebral spinal fluid

0.00

0.0

1.3

—

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

0.00

0.0

1.0

—

(3022058) Hepatitis B virus DNA [Presence] in Serum or Plasma by NAA with probe detection

0.00

0.0

1.3

—

(44816808) CXCL13 Ag [Mass/volume] in Cerebral spinal fluid

0.00

0.0

1.2

—

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

0.00

0.0

1.0

—

166.73

—

(3036432) Mycobacterium tuberculosis genotype [Identifier] in Isolate

0.00

0.0

11.2

—

(3005791) Eosinophil cationic protein (ECP) [Mass/volume] in Serum

0.00

0.0

1.5

—

17.00

—

(21491868) Cryoglobulin [Mass/volume] in Serum

0.00

0.0

1.0

—

(3020911) Cortisol [Moles/time] in 24 hour Urine

0.00

0.0

1.6

—

56.60

—

(3029536) Hepatitis C virus RNA [Units/volume] (viral load) in Specimen by NAA with probe detection

0.00

0.0

1.2

—

(3036071) Salmonella sp Ab [Titer] in Serum

0.00

0.0

1.0

—

(3009306) Alpha-1-Fetoprotein [Mass/volume] in Serum or Plasma

0.00

0.0

2.3

—

4.50

—

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

0.00

0.0

3.0

—

(3021236) Streptolysin O Ab [Units/volume] in Serum or Plasma

0.00

0.0

1.2

—

71.98

—

(3010380) Borrelia burgdorferi IgG Ab [Units/volume] in Cerebral spinal fluid

0.00

-0.00

0.0

1.4

—

(3045156) Carbon dioxide [Partial pressure] adjusted to patient's actual temperature in Arterial blood

0.00

-0.00

0.0

4.5

—

4.59

—

(3026515) Parvovirus B19 IgM Ab [Units/volume] in Serum

0.00

-0.00

0.0

1.1

—

(3022803) Oxygen [Partial pressure] adjusted to patient's actual temperature in Arterial blood

0.00

-0.00

0.0

4.5

—

10.32

—

(3011363) Streptococcus pneumoniae Ag [Presence] in Urine

0.00

-0.00

0.0

1.0

—

(3042975) Streptococcus sp identified in Isolate by Organism specific culture

0.00

-0.00

0.0

1.0

—

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

0.95

-0.00

2.4

—

8.32

—

(3028679) Herpes simplex virus Ab [Presence] in Serum

0.00

-0.00

0.0

1.0

—

(3008152) Bicarbonate [Moles/volume] in Arterial blood

0.96

-0.00

7.9

7.5

25.11

24.87

mmol/l

—

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

0.92

-0.00

1.3

—

(3026470) Cobalt [Mass/volume] in Blood

0.00

-0.00

0.0

2.3

—

2.94

—

(3014973) Borrelia burgdorferi IgM Ab [Units/volume] in Cerebral spinal fluid

0.00

-0.00

0.0

1.4

—

(44816752) ERBB2 gene copy number/nucleus in Tissue by FISH

0.00

-0.00

0.0

1.1

—

Mortality – FinRegistry

↥

Association

Association between endpoint CD2_BENIGN_FLOOROFMOUTH and mortality.

Females

Parameter	HR [95% CI]	p-value
CD2_BENIGN_FLOOROFMOUTH	1.587 [1.24, 2.04]	< 0.001
Birth year	0.996 [0.99, 1.01]	0.416

During the follow-up period (1.1.1998 — 31.12.2019), 117 out of 431 females with CD2_BENIGN_FLOOROFMOUTH died.

Males

Parameter	HR [95% CI]	p-value
CD2_BENIGN_FLOOROFMOUTH	1.841 [1.37, 2.48]	< 0.001
Birth year	0.991 [0.98, 1.0]	0.045

During the follow-up period (1.1.1998 — 31.12.2019), 106 out of 342 males with CD2_BENIGN_FLOOROFMOUTH died.

Mortality risk

Mortality risk for people of age

years, who have CD2_BENIGN_FLOOROFMOUTH.

N-year risk	Females	Males
1	0.164%	0.368%
5	0.817%	2.139%
10	2.325%	5.75%
15	4.773%	10.59%
20	8.665%	17.4%

Relationships between endpoints

↥

Index endpoint: CD2_BENIGN_FLOOROFMOUTH – Benign neoplasm: Floor of mouth

GWS hits: -

Endpoint

Case Overlap

Survival Analysis

Genetic Correlations

Genetic Signals

N (Jaccard index)

HR [CI]

rg [CI]

Hits

Coloc Hits

FinRegistry

FinnGen

FinRegistry

FinnGen

Loading data

Benign neoplasm: Floor of mouth

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)

Similar endpoints

Case counts by codes

Summary Statistics

-FinRegistry-

Key figures

-FinnGen-

Key figures

-FinRegistry-

Age distribution of first events

-FinnGen-

Age distribution of first events

-FinRegistry-

Year distribution of first events

-FinnGen-

Year distribution of first events

-FinRegistry-

Cumulative Incidence Function

-FinnGen-

Cumulative Incidence Function

CodeWAS

Matched cohort

LabWAS

Mortality – FinRegistry

Association

Females

Males

Mortality risk

Relationships between endpoints