Benign neoplasm: Testis

CD2_BENIGN_TESTIS

testicular carcinoma: A primary or metastatic malignant neoplasm that affects the testis. Representative examples include seminoma, embryonal carcinoma, sarcoma, leukemia, and lymphoma.

Suggest a new description

Endpoint definition

↥

Endpoint definition steps	FinnGen
Phenotype data	520210
1. Apply sex-specific rule only males	226837
2. Check conditions None	226837
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — D29.2& Hospital discharge: ICD-9 — 2220 Hospital discharge: ICD-8 — 2220 Cause of death: ICD-10 — D29.2& Cause of death: ICD-9 — 2220 Cause of death: ICD-8 — 2220 2 out of 7 registries used, show all original rules.	159
4. Check minimum number of events None	159
5. Include endpoints None	159
6. Filter based on genotype QC (FinnGen only)	159

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: D29
Name in latin: Neoplasma benignum testis

NAME	CD2_BENIGN_TESTIS
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX	1
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D292
HD_ICD_9	2220
HD_ICD_8	2220
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	D292
COD_ICD_9	2220
COD_ICD_8	2220
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: Testis based on the number of shared cases.

Similar with more cases:

Similar with less cases:

Benign neoplasm: Testis

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	1309	-	1309
Only index persons	1140	-	1140
Unadjusted period prevalence (%)
Whole population	0.04	-	0.04
Only index persons	0.04	-	0.04
Median age at first event (years)
Whole population	-	-	39.28
Only index persons	-	-	36.49

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	159	-	159
Unadjusted period prevalence (%)	0.07	-	0.07
Median age at first event (years)	47.14	-	47.14

-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
139: Matched controls
1390

Code

Vocabulary

Description

Odds Ratio

-log₁₀(p)

N matched cases

N matched controls

D29.2

ICD-10 Finland

Benign neoplasm: Testis

+∞

129.0

103

KFC00

NOMESCO Finland

Unilateral orchiectomy

63.3

38.8

D40.1

ICD-10 Finland

Neoplasm of uncertain or unknown behaviour: Testis

71.1

33.2

22200

ICD-8 Finland

Benign neoplasm of male genital organs, Testis

+∞

24.7

KF8AE

NOMESCO Finland

Ultrasound examination of scrotum

18.1

2220A

ICD-9 Finland

Benign neoplasm of male genital organs, Testis

+∞

13.8

KFA00

NOMESCO Finland

Exploration of testis

55.6

13.1

9061/3-C62.9

ICD-O-3

Seminoma, NOS, of testis, NOS

142.2

12.7

C62.11

ICD-10 Finland

Malignant tumor of the descending testicle, seminoma

65.1

10.8

7511

FHL

Orchidectomy (unilateral), also includes funicularectomy

+∞

7.3

7501

FHL

Testicular exploration (includes removal of biopsy, detorsion or appendix test)

42.1

6.8

D29.4

ICD-10 Finland

Benign neoplasm: Scrotum

+∞

6.3

LabWAS

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

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

27.37

11.37

3.8

4.3

—

(3017446) Testosterone [Moles/volume] in Serum or Plasma

183

2.94

7.82

2.8

2.3

12.1

13.8

nmol/l

0.62

167

(4035726)

2.74

4.09

1.2

1.5

—

(3002256) Pathology report gross observation

117

2.35

3.38

1.2

1.3

—

(3010156) C reactive protein [Mass/volume] in Serum or Plasma by High sensitivity method

3.61

3.10

1.2

1.7

2.0

3.0

mg/l

—

(3032080) INR in Blood by Coagulation assay

518

1.71

2.78

9.7

10.4

1.2

1.3

inr

1.05

135

(40768804) Tissue Pathology biopsy report

392

1.66

2.31

2.2

—

(1616796) Gas panel - Central venous blood

3.61

2.30

4.1

3.3

—

(3027315) Oxygen [Partial pressure] in Blood

3.61

2.30

7.6

2.4

7.9

8.1

kpa

—

(3013290) Carbon dioxide [Partial pressure] in Blood

3.61

2.30

7.6

2.4

4.9

kpa

—

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

2.21

2.27

1.6

—

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

265

1.74

2.26

2.8

2.6

3.0

e6/l

0.33

234

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

100

823

1.58

2.03

5.1

5.0

3.6

2.8

ug/l

0.17

733

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

2.14

1.93

4.5

2.6

63.3

61.0

ml/min/173m2

—

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

124

1.90

1.87

4.4

3.3

—

(36304419) Bacteria [Presence] in Urine

331

1.60

1.85

3.8

3.0

—

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

2.04

1.83

1.6

1.8

—

(3023368) Bacteria identified in Blood by Culture

389

1.54

1.74

5.0

—

(3044889) 12 lead EKG panel

826

1.49

1.61

4.1

—

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

100

1.90

1.61

2.1

1.8

—

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

238

1.60

1.58

3.0

3.7

227.2

177.0

ng/l

0.10

193

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

518

1.47

1.54

4.1

4.4

—

(40761536) Microorganisms panel - Urine sediment

1.93

1.52

5.5

4.1

—

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

454

1.48

1.52

3.9

3.3

—

(42870588) Differential panel, method unspecified - Blood

390

1.50

1.52

5.7

6.2

—

(3018418) pH of Serum or Plasma

328

1.52

1.50

7.3

4.1

7.4

0.25

(3002582) Erythrocytes [#/volume] in Urine

387

1.47

1.39

4.1

3.2

40.0

217.3

e6/l

0.57

309

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

0.00

1.36

0.0

4.8

—

(3018095) Leukocytes [#/volume] in Urine

418

1.44

1.33

4.8

3.7

97.2

82.8

e6/l

0.10

324

(3027545) Mycoplasma pneumoniae Ab [Presence] in Serum by Immunoassay

2.83

1.29

1.0

1.3

—

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

350

1.44

1.23

3.9

3.0

0.8

0.4

e6/l

0.29

266

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

2.11

1.17

1.1

1.5

—

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

136

1.63

1.16

1.9

1.7

—

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

2.42

1.10

2.8

2.2

—

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

131

1.60

1.06

1.7

1.6

—

(40758558) Short blood count panel - Blood

279

1.43

1.03

5.6

6.7

—

(3019198) Lymphocytes [#/volume] in Blood

588

1.34

1.02

5.1

6.5

1.7

e9/l

0.16

517

(3013115) Eosinophils [#/volume] in Blood

589

1.34

1.00

4.9

6.8

0.2

e9/l

0.20

515

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

1.80

0.99

13.5

8.8

24.2

24.4

mmol/l

0.03

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

103

918

1.35

0.99

8.4

8.1

73.2

77.9

u/l

0.71

861

(4094501)

0.00

0.98

0.0

1.2

—

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

1.93

0.95

1.9

1.3

—

(3001604) Monocytes [#/volume] in Blood

575

1.32

0.93

4.9

6.3

0.6

e9/l

0.28

493

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

2.19

0.92

1.0

1.4

—

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

2.19

0.92

1.0

1.4

—

(3006315) Basophils [#/volume] in Blood

576

1.32

0.91

4.9

6.3

0.0

e9/l

0.22

498

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

2.11

0.90

1.0

1.3

—

(3001122) Ferritin [Mass/volume] in Serum or Plasma

427

1.32

0.86

2.6

2.5

178.3

192.7

ug/l

0.15

394

(3049717) Cytology report of Urine Cyto stain

1.81

0.86

3.4

2.7

—

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

307

1.36

0.85

4.6

3.9

0.0

estimate

0.49

(3018677) aPTT in Platelet poor plasma by Coagulation assay

217

1.41

0.85

1.9

31.4

29.7

0.74

211

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

552

1.30

0.84

10.0

8.6

1.2

mmol/l

0.33

470

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

1.91

0.82

1.3

—

(40768797) Stomach Pathology biopsy report

149

1.47

0.81

1.1

1.3

—

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

126

1174

1.35

0.79

17.0

15.9

32.4

26.3

mg/l

0.83

102

951

(21494755) Public health laboratory ask at order entry panel

135

0.57

0.77

1.3

1.5

—

(3010521) Mycoplasma pneumoniae IgM Ab [Presence] in Serum by Immunoassay

2.12

0.75

1.0

1.1

—

(3012516) Albumin [Mass/volume] in Urine

358

0.74

0.73

3.1

3.5

28.0

328.2

mg/l

0.92

260

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

188

1.39

0.72

2.4

1.8

—

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

466

1.28

0.71

3.1

3.0

0.7

0.8

ug/l

0.67

298

(3037467) Urinalysis macro (dipstick) panel - Urine

759

1.26

0.71

4.6

3.9

—

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

430

1.27

0.68

1.8

2.0

86.7

89.0

pmol/l

0.11

244

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

235

1.34

0.68

1.7

1.5

mg/l

0.11

186

(3009542) Hematocrit [Volume Fraction] of Blood

115

1068

1.28

0.66

17.6

16.8

42.3

41.5

0.76

775

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

1.81

0.66

1.8

1.2

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

104

0.56

0.64

1.5

—

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

658

1.23

0.62

4.5

20.7

21.8

0.28

321

(3021589) Normoblasts [#/volume] in Blood

512

1.24

0.62

9.8

10.4

0.0

e9/l

0.25

410

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

1.60

0.61

1.9

2.7

—

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

0.00

0.60

0.0

2.9

—

4.1

—

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

0.00

0.60

0.0

2.9

—

105.2

—

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

0.00

0.60

0.0

2.9

—

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

0.00

0.60

0.0

1.1

—

(3020891) Body temperature

1.51

0.58

6.6

4.7

—

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

673

1.22

0.56

10.5

10.3

4.4

e9/l

0.01

584

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

152

1.36

0.55

1.4

1.9

—

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

100

1.44

0.54

1.3

1.5

—

(40761511) CBC panel - Blood by Automated count

130

1237

1.28

0.53

17.6

14.7

—

(3022145) Colonoscopy Study observation

118

1.40

0.52

1.4

1.3

—

(3020682) Albumin/Creatinine [Ratio] in Urine

382

0.80

0.50

4.0

4.3

6.4

9.2

mg/mmol

0.32

271

(3002032) Base excess in Venous blood by calculation

120

1.37

0.48

2.6

3.9

1.8

1.5

mmol/l

—

(3023520) Reticulocytes [#/volume] in Blood

120

1.37

0.48

3.3

2.5

61.8

67.6

e9/l

0.34

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

1.51

0.48

1.9

2.8

—

(3019832) Treponema pallidum Ab [Presence] in Serum

1.42

0.45

2.0

1.7

—

(3000492) Spirometry study

126

0.70

0.45

1.8

1.4

—

(3033658) Prothrombin time (PT) actual/Normal

307

1.22

0.44

3.9

4.1

86.0

86.7

0.06

300

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

1.58

0.42

1.0

1.4

—

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

0.00

0.41

0.0

1.3

—

(40760848) Basement membrane zone BP180 Ab [Units/volume] in Serum by Immunoassay

0.00

0.41

0.0

1.4

—

(42870365) C reactive protein [Mass/volume] in Blood by High sensitivity method

0.00

0.41

0.0

4.2

—

51.2

—

(3013512) EKG study

338

0.83

0.37

5.1

4.3

—

(3000991) Gas panel - Venous blood

117

1.31

0.37

11.0

9.6

—

(3000494) Fungus identified in Specimen by Culture

145

1.27

0.35

1.9

1.6

—

(3013707) Erythrocyte sedimentation rate by Westergren method

839

1.14

0.31

4.3

4.0

11.2

11.8

mm/h

0.17

771

(3012544) pH of Venous blood

121

1.26

0.30

2.5

4.2

—

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

103

982

1.14

0.29

3.6

1.9

2.0

mu/l

1.06

875

(40761535) Cells panel - Urine sediment

1.30

0.29

3.8

3.7

—

(3046279) Procalcitonin [Mass/volume] in Serum or Plasma

1.31

0.28

2.4

2.3

1.8

3.1

ug/l

—

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

118

0.75

0.28

2.1

2.3

6.9

8.9

ug/l

—

104

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

139

0.78

0.28

7.5

9.0

—

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

1.28

0.25

3.4

2.3

301.4

235.8

ng/l

0.15

(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

1.30

0.25

1.1

1.8

—

(36660697) Celiac disease serology panel - Serum

1.18

0.25

1.6

1.3

—

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

519

0.89

0.23

3.4

3.9

48.6

46.8

ng/l

0.03

376

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

1.29

0.23

7.2

2.6

26.8

24.3

mmol/l

—

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

1.26

0.22

6.6

2.3

—

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

154

1.19

0.22

1.4

2.0

—

(40760892) CBC W Ordered Manual Differential panel - Blood

240

1.15

0.22

5.7

5.3

—

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

103

0.76

0.22

1.4

1.7

—

(3019225) pH of Specimen

103

0.76

0.22

5.9

4.7

—

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

0.00

0.21

0.0

1.8

—

3.7

—

(4146454)

0.00

0.21

0.0

1.6

—

(3000924) Streptococcus pyogenes [Presence] in Throat by Organism specific culture

0.00

0.21

0.0

1.0

—

(40759812) SCL-70 extractable nuclear Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(40759843) Sjogrens syndrome-A extractable nuclear Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(40759836) Histone Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(40759849) Smith extractable nuclear Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(40759844) Sjogrens syndrome-B extractable nuclear Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(3037556) Urate [Mass/volume] in Serum or Plasma

0.00

0.21

0.0

1.0

—

(40759842) Ribonucleoprotein extractable nuclear Ab [Presence] in Serum by Immunoblot

0.00

0.21

0.0

1.3

—

(3006442) Creatine [Moles/volume] in Serum or Plasma

0.00

0.21

0.0

1.2

—

(3012202) Varicella zoster virus DNA [Presence] in Specimen by NAA with probe detection

0.00

0.21

0.0

1.4

—

(40766800) Mycobacterium tuberculosis stimulated gamma interferon release by CD4+ T-cells [Units/volume] corrected for background in Blood

0.00

0.21

0.0

1.6

—

(3016914) Bacteria identified in Cerebral spinal fluid by Culture

0.00

0.21

0.0

1.2

—

(3044927) Protein electrophoresis panel - Urine

0.00

0.21

0.0

1.2

—

(3026470) Cobalt [Mass/volume] in Blood

0.00

0.21

0.0

1.9

—

3.9

—

(3025577) Chromium [Mass/volume] in Blood

0.00

0.21

0.0

1.9

—

1.9

—

(3027944) Amphetamines [Presence] in Urine

1.18

0.19

10.2

2.5

—

(3016879) Cocaine [Presence] in Urine

1.18

0.19

10.0

2.5

—

(3000764) Benzodiazepines [Presence] in Urine

1.16

0.19

10.0

2.5

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

112

1087

1.10

0.18

5.3

6.3

40.3

40.9

mmol/mol

0.30

104

1012

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

707

1.09

0.17

2.8

2.9

—

(3022621) pH of Urine by Test strip

0.71

0.17

1.6

1.9

—

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

226

1.13

0.16

1.8

1.7

1332.8

1192.5

nmol/l

0.14

171

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

110

1129

0.92

0.16

4.5

4.7

6.0

6.1

mmol/l

0.66

103

1017

(3009035) Cobalamin (Vitamin B12) [Moles/volume] in Serum or Plasma

256

1.11

0.15

1.7

1.8

423.0

399.3

pmol/l

0.22

222

(3004588) Protein electrophoresis panel - Serum or Plasma

0.80

0.15

6.9

3.2

—

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

537

1.07

0.11

5.4

4.7

0.0

estimate

0.00

103

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

119

1169

1.07

0.10

3.9

4.5

4.4

mmol/l

0.33

110

1082

(3023081) Carboxyhemoglobin/Hemoglobin.total in Blood

1.07

0.09

5.4

16.1

1.3

1.5

—

(3007930) Methemoglobin/Hemoglobin.total in Blood

1.04

0.09

5.4

15.9

1.0

0.9

—

(3039443) Prostate specific Ag panel - Serum or Plasma

1.04

0.09

2.4

1.4

—

(3028300) Cannabinoids [Presence] in Urine

1.14

0.09

10.0

2.5

—

(3027008) Opiates [Presence] in Urine

1.14

0.09

10.0

2.5

—

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

540

1.06

0.09

4.3

3.5

0.0

estimate

0.00

103

(3025941) Bacteria identified in Stool by Culture

1.12

0.09

1.2

1.3

—

(40768800) Prostate Pathology biopsy report

1.09

0.09

1.2

1.1

—

(3044640) Blood type and Crossmatch panel - Blood

372

1.06

0.08

3.1

2.6

—

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

274

1.07

0.08

3.3

2.6

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

1.03

0.08

2.1

2.5

1.1

1.4

—

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

0.84

0.08

7.5

4.8

62.5

89.2

ng/l

—

(3022313) Gas panel - Capillary blood

0.83

0.08

5.0

3.4

—

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

1.10

0.07

18.3

17.0

—

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

245

1.07

0.07

4.1

3.4

—

(3026008) Bacteria identified in Urine by Culture

265

1.07

0.07

3.6

3.0

—

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

206

1.08

0.07

2.1

1.4

2.2

2.8

g/l

0.97

134

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

206

1.08

0.07

4.7

2.9

0.2

0.5

e6/l

0.81

114

(43055554) Base excess.100% oxygenated [Moles/volume] standard in Capillary blood by calculation

0.87

0.07

5.0

3.6

1.2

1.6

mmol/l

—

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

1.12

0.06

1.7

1.5

—

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

435

1.05

0.06

4.5

3.8

—

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

111

1095

1.05

0.06

18.1

14.8

82.1

81.6

ml/min/173m2

0.08

902

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

113

1144

0.96

0.05

3.5

4.0

1.3

1.4

mmol/l

0.19

102

1044

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

118

1167

1.04

0.05

3.9

4.4

1.3

mmol/l

0.43

109

1069

(3041096) Erythrocytes [Presence] in Urine by Automated

308

1.05

0.05

4.0

3.3

—

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

127

1259

1.04

0.04

11.6

10.7

27.8

30.6

u/l

1.31

127

1213

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

549

1.03

0.03

4.3

3.5

0.0

estimate

0.00

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

152

1.06

0.02

1.3

1.4

—

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

284

0.98

0.00

1.4

1.3

—

(3042936) Bacteria identified in Isolate by Culture

191

0.99

0.00

1.4

2.2

—

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

213

0.98

0.00

2.1

—

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

119

1195

0.98

0.00

4.4

4.9

2.7

mmol/l

0.00

111

1097

(1761868) Lipid panel - Serum or Plasma

438

1.01

0.00

2.4

2.8

—

(3007853) Bacteria identified in Skin by Aerobe culture

145

1.04

0.00

1.7

—

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

218

1.01

0.00

4.1

2.6

0.5

1.1

e6/l

1.03

124

(3019060) Gas panel - Arterial blood

1.06

0.00

4.2

9.1

—

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

766

1.01

0.00

2.9

15.3

14.8

pmol/l

0.87

670

(37020937) Giardia lamblia DNA [Presence] in Stool by NAA with probe detection

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

269.2

—

(3017569) Oxygen content in Arterial blood

0.00

0.0

13.2

—

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

(3050898) Methicillin resistant Staphylococcus aureus [Presence] in Genital specimen by Organism specific culture

0.00

0.0

2.2

—

(3014271) Vancomycin [Susceptibility]

0.00

0.0

2.3

—

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

0.00

0.0

1.0

—

(3045683) HLA typing for celiac disease panel - Blood or Tissue

0.00

0.0

1.0

—

(3038026) Centromere Ab [Units/volume] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

1.1

—

(36305771) Cryptosporidium sp DNA [Presence] in Stool by NAA with probe detection

0.00

0.0

1.0

—

(3042585) Pyridoxine [Moles/volume] in Serum or Plasma

0.00

0.0

1.3

—

93.2

—

(3032773) Endomysium IgG Ab [Titer] in Serum

0.00

0.0

1.0

—

(3017315) Amylase [Enzymatic activity/volume] in Urine

0.00

0.0

1.2

—

334.2

—

(3006922) Hepatitis E virus Ab [Presence] in Serum

0.00

0.0

1.0

—

(4133840)

0.00

0.0

1.0

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

1.9

—

(3034988) Calcium [Moles/volume] in Capillary blood

0.00

0.0

1.0

—

1.2

—

(3011544) Albumin [Mass/volume] in Pleural fluid

0.00

0.0

1.0

—

16.1

—

(3023024) Carbon dioxide [Partial pressure] in Capillary blood

0.93

0.00

5.3

3.5

5.5

5.1

kpa

—

(3006653) Thiamine [Moles/volume] in Blood

0.00

0.0

1.2

—

163.4

—

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

0.92

0.00

1.3

1.4

—

(3013566) Clostridioides difficile [Presence] in Stool by Organism specific culture

0.00

0.0

1.0

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

0.91

0.00

1.6

1.1

—

(3002222) Hepatitis E virus IgM Ab [Presence] in Serum

0.00

0.0

1.0

—

(3041067) Sjogrens syndrome-A extractable nuclear 52kD Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(3052592) Norovirus Ag [Presence] in Stool

0.00

0.0

1.0

—

(3017704) Immunofixation for Urine

0.00

0.0

1.1

—

(3000208) Alpha tocopherol [Moles/volume] in Serum or Plasma

0.00

0.0

1.8

—

25.6

—

(4024509)

0.00

0.0

1.0

—

(3017732) Neutrophils [#/volume] in Blood

0.94

0.00

1.9

3.2

4.1

4.0

e9/l

—

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

0.98

0.00

1.0

—

(3020717) Zinc [Moles/volume] in Serum or Plasma

0.00

0.0

1.8

—

25.7

—

(4010399)

0.98

0.00

1.1

1.4

—

(3048469) 10-Hydroxycarbazepine [Moles/volume] in Serum or Plasma

0.00

0.0

3.2

—

38.2

—

(3015183) Erythrocyte sedimentation rate

0.00

0.0

1.0

—

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

0.00

0.0

1.4

—

13.1

—

(3029023) Hepatitis E virus IgG Ab [Presence] in Serum by Immunoassay

0.00

0.0

1.0

—

(3033386) Bacteria [Presence] in Cerebral spinal fluid by Light microscopy

0.00

0.0

1.4

—

(3020650) Glucose [Presence] in Urine

0.00

0.0

1.2

—

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

1.02

0.00

6.2

3.5

—

1.3

—

(3035933) Granulocytes/100 leukocytes in Blood

0.00

0.0

1.0

—

(3043410) Blood group antigens tested for on Red Blood Cells

0.00

0.0

1.3

—

(3004451) EKG impression Narrative

0.00

0.0

1.3

—

(3035999) Lactate [Moles/volume] in Cerebral spinal fluid

0.00

0.0

1.3

—

1.9

—

(3036071) Salmonella sp Ab [Titer] in Serum

0.00

0.0

1.3

—

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

0.00

0.0

1.0

—

(3022192) Triglyceride [Mass/volume] in Serum or Plasma

0.00

0.0

3.2

—

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

0.90

0.00

1.6

1.3

—

(3011391) Calcitriol [Moles/volume] in Serum or Plasma

0.00

0.0

1.0

—

(3044007) Cell count panel - Peritoneal fluid

0.00

0.0

1.1

—

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

0.00

0.0

1.0

—

Mortality – FinRegistry

↥

Association

Association between endpoint CD2_BENIGN_TESTIS and mortality.

Females

No data

Males

Parameter	HR [95% CI]	p-value
CD2_BENIGN_TESTIS	1.218 [0.97, 1.53]	0.089
Birth year	0.987 [0.98, 1.0]	0.006

During the follow-up period (1.1.1998 — 31.12.2019), 128 out of 807 males with CD2_BENIGN_TESTIS died.

Mortality risk

Mortality risk for people of age

years, who have CD2_BENIGN_TESTIS.

N-year risk	Females	Males
1	No data	0.273%
5	No data	1.509%
10	No data	3.655%
15	No data	6.935%
20	No data	11.538%

Relationships between endpoints

↥

Index endpoint: CD2_BENIGN_TESTIS – Benign neoplasm: Testis

GWS hits: 1

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: Testis

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