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.

Suggest a new description

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: 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.	129
4. Check minimum number of events None	129
5. Include endpoints None	129
6. Filter based on genotype QC (FinnGen only)	129

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:

Benign neoplasm: Floor of mouth

Case counts by codes

↥

FinnGen case counts by registry codes:

Upset plot

Full data table

Summary Statistics

↥

-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	129	70	59
Unadjusted period prevalence (%)	0.02	0.02	0.03
Median age at first event (years)	51.62	50.68	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 (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.

Matched cohort

Matched cases
115: Matched controls
1150

Code

Vocabulary

Description

Odds Ratio

-log₁₀(p)

N matched cases

N matched controls

D10.2

ICD-10 Finland

Benign neoplasm: Floor of mouth

+∞

124.7

EJA10

NOMESCO Finland

Biopsy of tongue or floor of mouth

66.7

26.8

EJB30

NOMESCO Finland

Excision of lesion of floor of mouth

183.7

15.9

21030

ICD-8 Finland

Benign neoplasm of buccal cavity and pharynx, Floor of mouth

+∞

14.9

PJD71

NOMESCO Finland

Extended sparing excision of cervical lymph nodes

85.2

7.5

JN4KR

NOMESCO Finland

Whole body very extensive metabolic PET with CT

+∞

6.3

LabWAS

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

(40768804) Tissue Pathology biopsy report

404

2.60

6.63

2.6

2.0

—

(3006504) Eosinophils/100 leukocytes in Blood

487

2.22

4.67

4.7

6.1

2.4

2.7

0.70

457

(42870588) Differential panel, method unspecified - Blood

338

2.23

4.66

3.9

5.7

—

(3019069) Monocytes/100 leukocytes in Blood

488

2.21

4.63

5.0

6.4

8.0

8.4

0.49

461

(3018010) Neutrophils/100 leukocytes in Blood

494

2.17

4.42

4.6

5.9

58.3

58.0

0.05

464

(3002030) Lymphocytes/100 leukocytes in Blood

500

2.13

4.22

4.7

6.2

27.4

27.2

0.04

468

(3013115) Eosinophils [#/volume] in Blood

536

2.08

3.97

6.1

6.3

0.2

e9/l

0.00

485

(3003458) Phosphate [Moles/volume] in Serum or Plasma

131

2.45

3.87

4.9

7.0

1.0

mmol/l

0.31

121

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

405

2.02

3.74

2.4

2.3

69.7

75.2

nmol/l

0.84

353

(3052851) Hemolysis interference index of Serum or Plasma

3.92

3.72

4.6

3.9

—

(3001604) Monocytes [#/volume] in Blood

518

2.01

3.64

4.9

6.1

0.6

e9/l

0.63

463

(3006315) Basophils [#/volume] in Blood

520

1.99

3.58

5.0

6.2

0.0

e9/l

0.36

464

(3022096) Basophils/100 leukocytes in Blood

474

1.98

3.56

4.8

6.0

0.7

0.6

0.14

442

(3023368) Bacteria identified in Blood by Culture

280

2.00

3.30

5.1

4.6

—

(3019198) Lymphocytes [#/volume] in Blood

530

1.93

3.29

4.9

6.1

2.2

1.8

e9/l

0.55

482

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

603

1.92

3.15

9.3

10.3

4.4

4.2

e9/l

0.34

538

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

4.12

2.83

1.0

1.2

—

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

167

2.04

2.71

3.0

3.7

59.0

179.5

ng/l

0.80

134

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

224

1.91

2.63

2.5

2.2

—

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

406

1.72

2.34

2.0

1.9

86.7

96.6

pmol/l

1.07

197

(1002224) Polysomnography panel

2.84

2.34

1.1

—

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

216

1.85

2.33

1.7

1.1

1.2

mg/l

0.26

173

(3037467) Urinalysis macro (dipstick) panel - Urine

709

1.70

2.07

4.7

4.3

—

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

3.21

2.05

1.5

1.4

—

(3009542) Hematocrit [Volume Fraction] of Blood

109

949

1.96

2.05

20.9

14.3

41.1

40.6

0.34

713

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

2.94

2.04

4.0

2.3

1.4

1.6

mg/l

—

(40758558) Short blood count panel - Blood

267

1.72

2.03

7.4

6.6

—

(3044889) 12 lead EKG panel

722

1.69

2.01

3.9

3.8

—

(4035726)

2.15

2.01

1.8

1.3

—

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

2.58

1.99

3.5

5.1

25.6

24.0

mmol/l

0.52

(3044640) Blood type and Crossmatch panel - Blood

314

1.67

1.93

2.9

2.2

—

(3022250) Lactate dehydrogenase [Enzymatic activity/volume] in Serum or Plasma by Lactate to pyruvate reaction

117

1.95

1.88

4.7

4.4

230.8

248.5

u/l

0.40

112

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

2.69

1.84

1.4

2.3

—

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

2.69

1.84

1.4

1.7

—

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

2.69

1.84

1.4

2.5

—

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

2.19

1.78

1.3

1.7

—

(3042936) Bacteria identified in Isolate by Culture

144

1.82

1.73

2.1

1.7

—

(3021589) Normoblasts [#/volume] in Blood

460

1.57

1.72

8.6

10.3

0.0

e9/l

0.74

383

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

2.44

1.65

1.0

—

(3032080) INR in Blood by Coagulation assay

399

1.56

1.62

8.5

8.2

1.2

inr

0.02

130

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

763

1.59

1.62

4.0

3.9

15.0

14.8

pmol/l

0.27

681

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

2.79

1.60

2.0

2.2

199.7

193.2

—

(3022145) Colonoscopy Study observation

101

1.91

1.58

1.6

1.4

—

(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

2.18

1.55

1.6

1.7

—

(3012544) pH of Venous blood

1.93

1.49

3.1

4.7

—

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

2.14

1.49

2.5

2.2

157.1

231.3

ng/l

0.42

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

159

1.71

1.49

2.5

13.6

13.4

umol/l

0.04

143

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

2.58

1.47

1.0

1.3

—

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

2.58

1.47

1.0

1.3

—

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

2.58

1.47

1.0

1.3

—

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

106

944

1.69

1.46

5.4

4.6

1.9

mu/l

0.25

847

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

609

1.50

1.46

6.5

4.5

6.4

6.7

mmol/l

0.84

556

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

3.21

1.45

1.8

1.1

—

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

3.21

1.45

1.8

1.1

—

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

457

1.49

1.40

3.9

4.1

—

(40761511) CBC panel - Blood by Automated count

118

1088

1.99

1.38

16.3

13.4

—

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

3.02

1.37

1.4

1.3

—

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

1.94

1.36

1.6

2.5

3.3

7.5

ug/l

1.98

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

2.17

1.33

1.9

1.7

—

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

110

997

1.70

1.32

4.2

4.5

6.2

5.9

mmol/l

1.03

906

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

2.47

1.26

1.3

1.2

—

(3019225) pH of Specimen

1.84

1.25

3.5

5.4

—

(3000494) Fungus identified in Specimen by Culture

126

1.70

1.23

1.4

—

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

159

1.63

1.23

1.8

1.9

—

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

327

1.47

1.21

3.8

3.4

2.4

2.3

mmol/l

0.91

284

(3000991) Gas panel - Venous blood

1.87

1.15

15.3

9.4

—

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

112

1029

1.67

1.15

19.9

14.4

24.6

21.5

mg/l

0.48

807

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

196

1.55

1.15

1.6

1.7

825.0

1210.0

nmol/l

2.09

145

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

2.41

1.14

2.1

1.7

94.9

90.0

—

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

2.41

1.14

2.0

1.3

5.1

9.6

u/l

—

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

2.41

1.14

1.3

—

4.1

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

1.94

1.11

1.4

1.2

—

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

2.43

1.10

3.6

2.8

—

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

1.87

1.09

4.0

5.0

128.3

86.0

ng/l

0.52

(3026782) Osmolality of Urine

217

1.50

1.06

3.9

2.7

460.4

573.4

mosm/kgh2o

2.45

183

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

157

1.57

1.05

3.7

2.8

1.4

2.7

e6/l

—

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

2.32

1.04

1.0

1.6

—

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

166

1.55

1.04

3.7

2.7

0.9

0.7

e6/l

0.22

(3007853) Bacteria identified in Skin by Aerobe culture

116

1.64

1.03

2.0

1.6

—

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

0.00

0.99

0.0

1.3

—

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

0.00

0.99

0.0

2.0

—

(3018095) Leukocytes [#/volume] in Urine

377

1.39

0.96

5.4

3.7

64.0

60.0

e6/l

0.04

273

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

107

985

1.51

0.95

18.9

13.4

79.8

81.1

ml/min/173m2

0.24

785

(40768797) Stomach Pathology biopsy report

145

1.54

0.92

1.5

1.2

—

(3018418) pH of Serum or Plasma

296

1.40

0.92

4.1

4.4

7.4

—

(3000492) Spirometry study

1.72

0.92

1.6

1.5

—

(3006923) Alanine aminotransferase [Enzymatic activity/volume] in Serum or Plasma

117

1100

1.68

0.92

11.1

10.4

29.0

26.5

u/l

0.43

112

1064

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

1.64

0.89

2.2

2.6

46.7

32.5

u/l

0.54

(1761868) Lipid panel - Serum or Plasma

418

0.72

0.86

3.0

2.9

—

(40760892) CBC W Ordered Manual Differential panel - Blood

245

1.41

0.85

5.1

6.1

—

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

1.71

0.85

1.2

1.5

—

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

292

1.37

0.83

5.1

2.9

0.4

0.3

e6/l

0.11

215

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

415

0.72

0.82

3.6

4.1

—

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

367

1.35

0.82

4.8

3.2

—

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

229

1.40

0.81

4.2

2.6

5.6

4.6

e6/l

0.34

200

(3020564) Creatinine [Moles/volume] in Serum or Plasma

116

1096

1.58

0.78

22.6

16.4

78.6

79.4

umol/l

0.12

116

1096

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

168

1.45

0.78

1.2

0.8

6.4

u/ml

—

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

1.80

0.77

2.7

2.4

—

(3002582) Erythrocytes [#/volume] in Urine

333

1.34

0.76

4.9

3.0

57.7

227.8

e6/l

0.42

259

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

2.04

0.73

1.2

1.6

—

(36304419) Bacteria [Presence] in Urine

289

1.34

0.72

5.0

2.8

—

(3026008) Bacteria identified in Urine by Culture

308

1.33

0.71

3.5

3.1

—

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

1.89

0.69

1.0

1.7

—

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

1.82

0.67

1.0

1.2

—

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

1.82

0.67

1.0

1.6

—

(3002256) Pathology report gross observation

121

1.47

0.66

1.4

1.2

—

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

111

1048

1.42

0.66

4.8

2.8

2.7

mmol/l

0.02

100

961

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

418

1.28

0.63

3.2

3.8

22.8

38.7

ng/l

0.98

287

(3041096) Erythrocytes [Presence] in Urine by Automated

305

0.74

0.63

3.8

3.5

—

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

1.69

0.62

2.0

1.3

—

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

231

1.33

0.61

2.5

3.9

—

(3018677) aPTT in Platelet poor plasma by Coagulation assay

150

1.39

0.60

4.9

1.8

30.2

29.5

0.15

143

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

115

1.45

0.60

3.6

4.0

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

1.54

0.59

2.8

2.5

0.9

1.3

—

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

1.51

0.58

1.0

1.3

—

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

1.55

0.58

1.5

—

(4010399)

1.55

0.58

1.5

1.4

—

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

1.70

0.57

1.7

1.8

37.3

40.9

nmol/l

—

(3012516) Albumin [Mass/volume] in Urine

280

1.29

0.57

3.5

3.1

2280.9

289.1

mg/l

0.41

176

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

463

1.25

0.55

9.3

7.7

1.2

mmol/l

0.24

389

(3013512) EKG study

302

1.27

0.52

4.5

3.7

—

(3043723) Beta 1 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

1.52

0.52

1.2

—

(3008898) HLA-B27 [Presence]

1.52

0.52

1.2

1.1

—

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

101

1.43

0.52

3.6

1.9

387.4

351.1

nmol/l

0.44

(3004588) Protein electrophoresis panel - Serum or Plasma

1.41

0.52

1.7

2.3

—

(3019150) Specific gravity of Urine by Refractometry

231

0.74

0.50

3.1

4.2

1.0

kg/l

—

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

295

0.77

0.50

3.4

4.2

0.0

estimate

—

107

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

286

1.26

0.48

3.5

2.9

351.3

8652.8

umol/l

1.50

242

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

1.42

0.46

2.6

1.9

—

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

113

1.37

0.45

1.9

1.6

—

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

123

1.34

0.43

4.9

4.3

26.1

30.4

—

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

1.40

0.42

25.0

5.1

24.8

24.9

mmol/l

—

(3020682) Albumin/Creatinine [Ratio] in Urine

300

1.23

0.42

4.3

3.9

13.3

8.6

mg/mmol

0.36

190

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

101

959

1.25

0.42

5.4

5.7

41.3

40.1

mmol/mol

0.48

892

(3023511) Choriogonadotropin [Units/volume] in Urine

0.00

0.41

0.0

1.6

—

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

0.00

0.41

0.0

1.2

—

(3006588) Cancer Ag 15-3 [Units/volume] in Serum or Plasma

0.00

0.41

0.0

3.2

—

58.8

—

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

124

1.33

0.41

1.5

—

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.41

0.0

1.1

—

(3022621) pH of Urine by Test strip

1.39

0.39

2.8

2.5

—

(3045414) Leukocytes [Presence] in Urine

1.40

0.38

1.2

1.5

—

(3049717) Cytology report of Urine Cyto stain

1.49

0.36

3.0

2.3

—

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

719

1.18

0.36

2.7

3.0

45.3

51.4

u/l

0.40

673

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

107

1028

1.24

0.35

4.1

4.4

4.7

mmol/l

0.14

950

(3027273) Bicarbonate [Moles/volume] in Venous blood

1.35

0.34

1.5

3.6

23.3

24.3

mmol/l

—

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

1.32

0.33

1.3

2.1

44.8

42.6

u/l

—

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

1.32

0.33

1.3

2.1

1.4

1.6

g/l

—

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

147

1.26

0.33

1.3

—

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

358

1.17

0.31

5.0

4.5

2.2

2.0

ug/l

0.23

319

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

1.27

0.28

1.3

1.2

—

33.9

—

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

677

1.14

0.28

2.8

3.0

—

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

104

1.28

0.27

1.4

1.9

—

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

179

1.21

0.27

1.3

1.5

—

(36660697) Celiac disease serology panel - Serum

1.32

0.27

1.4

1.1

—

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

114

1.26

0.26

2.1

1.7

—

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

115

1.24

0.24

12.2

7.8

—

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

102

988

1.15

0.22

3.9

1.4

1.3

mmol/l

0.90

897

(4268621)

0.00

0.21

0.0

1.7

—

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

0.00

0.21

0.0

1.5

—

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

0.00

0.21

0.0

2.2

—

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

0.00

0.21

0.0

4.7

—

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

0.00

0.21

0.0

1.0

—

(3051014) Leukocytes [#/area] in Urine sediment by Automated count

0.00

0.21

0.0

1.8

—

0.2

—

(4281824)

0.00

0.21

0.0

1.0

—

(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

—

(3035637) Corticotropin [Mass/volume] in Plasma

0.00

0.21

0.0

1.5

—

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

0.00

0.21

0.0

1.5

—

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

0.00

0.21

0.0

1.6

—

(3019977) pH of Arterial blood

0.00

0.21

0.0

8.0

—

7.4

—

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

524

0.90

0.20

5.1

5.3

0.0

estimate

0.00

111

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

1.21

0.20

2.3

2.7

—

(3015736) pH of Urine

410

1.11

0.18

2.6

3.7

—

(3013707) Erythrocyte sedimentation rate by Westergren method

779

1.11

0.18

4.1

11.9

mm/h

0.02

709

(40761535) Cells panel - Urine sediment

1.17

0.17

2.0

3.7

—

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

529

0.91

0.16

3.4

3.9

0.0

estimate

0.00

108

(3048816) Calcium.ionized [Moles/volume] adjusted to pH 7.4 in Blood

1.10

0.15

2.8

5.2

1.2

mmol/l

—

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

218

1.12

0.15

3.4

2.7

0.7

ug/l

0.02

141

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

0.80

0.14

1.6

1.9

—

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

190

1.13

0.14

1.6

1.8

—

(3000330) Specific gravity of Urine by Test strip

1.17

0.10

3.2

4.3

—

(3004529) Oxygen [Partial pressure] adjusted to patient's actual temperature in Venous blood

1.09

0.09

1.4

3.2

51.1

52.5

—

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

155

1.11

0.09

1.6

—

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

195

1.09

0.08

1.4

1.5

2.7

g/l

0.02

121

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

0.79

0.08

1.4

1.2

—

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

518

0.94

0.08

3.4

3.9

0.0

estimate

0.00

109

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

294

1.07

0.08

4.7

4.2

24.0

22.1

0.33

136

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

255

1.07

0.07

1.4

1.5

—

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

0.85

0.07

24.4

8.6

107.9

120.7

g/l

—

(21494755) Public health laboratory ask at order entry panel

103

0.86

0.06

1.1

1.4

—

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

110

0.90

0.05

1.5

2.1

—

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

119

0.92

0.04

2.3

1.6

1.5

1.4

0.21

102

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

298

0.97

0.02

1.4

1.6

1.5

mmol/l

0.25

251

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

103

1.07

0.02

1.9

1.7

—

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

103

1023

1.03

0.01

4.3

1.4

1.5

mmol/l

0.59

935

(3019832) Treponema pallidum Ab [Presence] in Serum

1.05

0.00

2.0

1.7

—

(3019060) Gas panel - Arterial blood

0.96

0.00

4.9

4.2

—

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

0.00

0.0

1.3

—

(4211845)

0.00

0.0

1.3

—

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

0.00

0.0

9.6

—

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

0.00

0.0

1.4

—

11.0

—

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

0.00

0.0

1.4

—

(3041145) Herpes simplex virus IgM Ab [Presence] in Serum by Immunoassay

0.00

0.0

1.0

—

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

0.00

0.0

1.5

—

17.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.0

—

(3019897) Erythrocyte distribution width [Ratio] by Automated count

0.00

0.0

2.9

—

13.7

—

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

0.00

0.0

1.2

—

6.5

—

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

0.00

0.0

1.4

—

(3004915) Chlamydophila pneumoniae IgA Ab [Units/volume] in Serum

0.00

0.0

1.1

—

(3035947) Staphylolysin Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(1617658) Protocol used for examination of sentinel lymph nodes

0.00

0.0

1.0

—

(21494434) Karyotype in Bone marrow

0.00

0.0

1.1

—

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

0.00

0.0

4.1

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

(3019497) Choriogonadotropin.beta subunit free [Moles/volume] in Serum or Plasma

0.00

0.0

1.5

—

(40768441) Liver Pathology biopsy report

0.00

0.0

1.0

—

(3011363) Streptococcus pneumoniae Ag [Presence] in Urine

0.00

0.0

1.0

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

2.6

—

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

0.00

0.0

1.1

—

(3005719) IgG [Mass/volume] in Serum or Plasma

1.00

0.00

1.9

2.5

11.7

10.1

g/l

—

(3035933) Granulocytes/100 leukocytes in Blood

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

1.4

—

(3028026) IgM [Mass/volume] in Serum or Plasma

0.90

0.00

1.3

1.7

0.8

1.2

g/l

—

(40761536) Microorganisms panel - Urine sediment

0.91

0.00

5.7

3.9

—

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

0.00

0.0

4.1

—

(3026470) Cobalt [Mass/volume] in Blood

0.00

0.0

2.1

—

2.9

—

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

0.00

0.0

1.2

—

72.0

—

(3015076) Soybean IgE Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

1.00

0.00

1.0

1.5

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

(3017569) Oxygen content in Arterial blood

0.00

0.0

9.5

—

(40766048) U1 small nuclear ribonucleoprotein 70kD Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.3

—

(40757349) CD3+CD4+ (T4 helper) cells/CD3+CD8+ (T8 suppressor cells) cells [# Ratio] in Blood

0.00

0.0

1.2

—

(3014891) Appearance of Pleural fluid

0.00

0.0

1.2

—

(3038177) Helicobacter pylori Ab [Presence] in Serum

0.00

0.0

1.0

—

(3021125) Hepatitis C virus RNA [Presence] in Serum or Plasma by NAA with probe detection

0.00

0.0

1.5

—

(3020876) Protein [Mass/time] in 24 hour Urine

0.00

0.0

2.2

—

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

0.00

0.0

2.4

—

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

0.00

0.0

1.1

—

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

0.96

0.00

21.8

7.3

—

(3036432) Mycobacterium tuberculosis genotype [Identifier] in Isolate

0.00

0.0

10.0

—

(21491868) Cryoglobulin [Mass/volume] in Serum

0.00

0.0

1.0

—

(3036071) Salmonella sp Ab [Titer] in Serum

0.00

0.0

1.0

—

(3002148) Methylenedioxymethamphetamine [Presence] in Urine by Screen method

0.00

0.0

1.5

—

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 (R11)

Matched cohort

LabWAS

Mortality – FinRegistry

Association

Females

Males

Mortality risk

Relationships between endpoints