Risteys · CD2_BENIGN_RENALPELVIS

Endpoint definition steps	FinnGen
Phenotype data
1. Apply sex-specific rule None	-
2. Check conditions None
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — D30.1& Hospital discharge: ICD-9 — 2231 Hospital discharge: ICD-8 — 2231 Cause of death: ICD-10 — D30.1& Cause of death: ICD-9 — 2231 Cause of death: ICD-8 — 2231 2 out of 7 registries used, show all original rules.	-
4. Check minimum number of events None	-
5. Include endpoints None	-
6. Filter based on genotype QC (FinnGen only) None	-

Summary Statistics

↥

-FinRegistry-

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

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	51	31	20
Unadjusted period prevalence (%)	0.01	0.01	0.01
Median age at first event (years)	61.93	56.36	70.57

-FinnGen-

Age distribution of first events

-FinnGen-

Year distribution of first events

-FinnGen-

Cumulative Incidence Function

Not a core endpoint, no data to show.

CodeWAS (R11)

↥

CodeWAS is a tool for exploring the associations between an endpoint and all of the medical codes and drug codes.

This is a new tool, please reach out using the contact form for feedback and improvement ideas.

First, a cohort is built by matching controls to the endpoint cases using year of birth and sex. Then, a Fisher test is done for all the medical codes and drug codes between the cases and controls of this cohort. Codes are reported in the table below if they have −log₁₀(p-value) ≥ 6.

No data available

LabWAS

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

(3015736) pH of Urine

145

3.06

3.74

4.1

3.6

—

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

210

3.13

3.53

8.5

5.7

4.4

4.3

e9/l

0.05

180

(3031040) Bacteria [#/volume] in Urine by Automated count

267

3.31

3.20

7.0

4.3

—

9264.3

—

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

134

2.70

2.97

5.5

3.0

—

(3002256) Pathology report gross observation

3.64

2.82

1.2

1.0

—

(3026782) Osmolality of Urine

2.69

2.63

3.4

2.9

508.5

547.0

mosm/kgh2o

0.26

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

179

2.44

2.45

5.7

3.8

—

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

2.57

2.35

3.6

3.4

—

(3037467) Urinalysis macro (dipstick) panel - Urine

282

2.63

2.25

6.7

4.2

—

(3049717) Cytology report of Urine Cyto stain

4.70

2.22

3.8

1.9

—

(3016251) Hemoglobin.gastrointestinal [Presence] in Stool

3.60

2.20

2.1

2.2

—

(40768804) Tissue Pathology biopsy report

120

2.27

2.03

2.9

1.6

—

(3023368) Bacteria identified in Blood by Culture

2.29

1.93

4.1

4.0

—

(3013115) Eosinophils [#/volume] in Blood

194

2.15

1.87

5.2

4.9

0.2

e9/l

0.02

170

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

2.81

1.85

1.8

1.6

24.6

29.0

u/l

—

(3019198) Lymphocytes [#/volume] in Blood

191

2.03

1.65

5.7

5.1

1.7

1.8

e9/l

0.23

168

(36304419) Bacteria [Presence] in Urine

105

2.10

1.60

5.9

2.9

—

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

3.57

1.56

7.8

—

(3009445) Proteinase 3 Ab [Units/volume] in Serum

3.57

1.56

1.0

1.1

—

(3006315) Basophils [#/volume] in Blood

185

1.98

1.54

5.5

5.0

0.0

e9/l

0.81

158

(3021589) Normoblasts [#/volume] in Blood

149

1.99

1.54

6.6

9.6

0.0

e9/l

0.00

119

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

134

1.96

1.45

3.5

2.2

62.1

56.9

u/l

0.38

124

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

117

1.99

1.45

5.9

3.1

0.0

0.4

e6/l

3.47

(3044640) Blood type and Crossmatch panel - Blood

127

1.95

1.39

3.7

1.8

—

(3044889) 12 lead EKG panel

270

1.94

1.34

4.7

4.0

—

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

2.00

1.34

3.8

1.9

—

(3003338) MCHC [Mass/volume]

325

2.07

1.29

30.1

16.4

329.6

331.5

g/l

0.52

325

(3001604) Monocytes [#/volume] in Blood

185

1.83

1.26

5.6

5.0

0.6

e9/l

0.04

158

(40761535) Cells panel - Urine sediment

2.48

1.22

2.3

3.1

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

2.48

1.22

1.2

1.3

—

(3026008) Bacteria identified in Urine by Culture

132

1.85

1.22

3.8

3.2

—

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

2.07

1.21

5.3

2.9

0.4

3.3

e6/l

—

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

2.03

1.17

5.3

2.9

0.6

1.0

e6/l

—

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

144

1.78

1.12

5.8

4.0

—

(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

2.53

1.11

1.8

1.5

—

(3037522) Nuclear Ab [Titer] in Serum

2.16

1.11

1.3

—

602.4

—

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

2.41

1.06

1.2

1.3

—

(3042936) Bacteria identified in Isolate by Culture

2.06

1.05

1.9

2.0

—

(40758558) Short blood count panel - Blood

1.87

1.04

5.1

3.8

—

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

175

1.70

1.01

2.4

2.0

87.3

100.1

pmol/l

—

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

390

1.93

0.93

5.2

4.7

6.0

5.9

mmol/l

0.10

353

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

2.02

0.93

9.8

7.1

—

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

208

1.63

0.90

2.8

—

(3012516) Albumin [Mass/volume] in Urine

117

1.68

0.86

5.1

3.0

36.7

105.4

mg/l

—

(3009542) Hematocrit [Volume Fraction] of Blood

343

1.77

0.86

26.0

13.5

35.8

38.4

0.66

237

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

100

1.71

0.85

1.6

1.2

—

(40761511) CBC panel - Blood by Automated count

404

1.97

0.84

17.0

12.5

—

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

1.74

0.78

1.9

1.6

—

(4010399)

2.02

0.73

1.8

1.3

—

(3020682) Albumin/Creatinine [Ratio] in Urine

122

1.59

0.72

6.4

3.8

5.7

10.9

mg/mmol

—

(3012544) pH of Venous blood

1.77

0.72

5.0

5.3

—

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

1.94

0.70

1.2

1.8

—

(3000991) Gas panel - Venous blood

1.94

0.70

9.6

10.6

—

(3004789) Transferrin [Mass/volume] in Serum or Plasma

1.64

0.63

3.4

3.7

2.0

2.2

g/l

—

(3021614) Rheumatoid factor [Units/volume] in Serum or Plasma

1.64

0.59

1.4

1.3

—

28.0

—

(3022621) pH of Urine by Test strip

1.75

0.59

6.0

2.6

—

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

1.64

0.57

1.7

1.4

—

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

1.61

0.55

2.2

1.5

—

(42870588) Differential panel, method unspecified - Blood

120

1.49

0.55

5.6

4.8

—

(3007853) Bacteria identified in Skin by Aerobe culture

1.60

0.51

3.6

1.7

—

(3024731) MCV [Entitic volume]

429

1.74

0.51

33.0

19.3

92.1

91.2

0.65

419

(3035941) MCH [Entitic mass]

429

1.74

0.51

32.9

19.3

30.4

30.3

0.21

419

(3000963) Hemoglobin [Mass/volume] in Blood

429

1.74

0.51

33.1

19.5

129.4

133.8

g/l

1.77

419

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

1.48

0.45

1.8

1.4

—

(3004588) Protein electrophoresis panel - Serum or Plasma

1.68

0.44

1.6

1.4

—

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

1.45

0.44

1.9

1.6

—

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

0.00

0.42

0.0

1.6

—

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

0.00

0.41

0.0

1.1

—

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

174

1.35

0.41

4.2

4.0

31.6

72.3

ng/l

1.08

122

(4094501)

0.00

0.40

0.0

1.1

—

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

1.47

0.40

4.4

4.1

—

(3019225) pH of Specimen

1.52

0.38

7.0

4.6

—

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

1.48

0.37

1.8

1.4

—

(3022145) Colonoscopy Study observation

1.48

0.37

1.2

—

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

413

1.48

0.35

29.8

15.1

86.1

81.4

umol/l

0.38

413

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

1.28

0.27

1.1

1.2

—

(3020630) Protein [Mass/volume] in Serum or Plasma

1.39

0.24

1.6

1.3

68.4

66.7

g/l

—

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

1.31

0.23

2.2

1.5

—

(3041096) Erythrocytes [Presence] in Urine by Automated

108

1.27

0.23

4.4

3.7

—

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

0.00

0.21

0.0

1.7

—

(3022806) Fractional oxyhemoglobin in Capillary blood

0.00

0.21

0.0

1.6

—

90.3

—

(3023323) Follitropin [Units/volume] in Serum or Plasma

0.00

0.21

0.0

1.2

—

22.6

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.21

0.0

3.8

—

5.0

—

(1616796) Gas panel - Central venous blood

0.00

0.21

0.0

2.7

—

(3006184) Hemoglobin [Mass/volume] in Capillary blood

0.00

0.21

0.0

1.5

—

133.8

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.21

0.0

3.8

—

8.2

—

(40767503) Oxygen content in Capillary blood by calculation

0.00

0.20

0.0

1.7

—

16.6

—

(3050380) Cytology report of Cervical or vaginal smear or scraping Cyto stain

0.00

0.20

0.0

1.2

—

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

0.00

0.20

0.0

1.1

—

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

1.15

0.18

3.7

3.3

10.2

13.5

umol/l

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.17

0.16

6.7

5.8

—

(3013512) EKG study

132

1.19

0.15

3.5

4.0

—

(3000494) Fungus identified in Specimen by Culture

1.15

0.10

1.2

1.5

—

(40768797) Stomach Pathology biopsy report

1.11

0.08

1.1

1.2

—

(1761868) Lipid panel - Serum or Plasma

125

1.05

0.00

2.5

3.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.0

—

(3020148) Glutamate decarboxylase 65 Ab [Units/volume] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

(3025130) Human papilloma virus identified in Specimen

0.00

0.0

2.0

—

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

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

(40766189) Gliadin peptide IgG Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.2

—

(3018559) Microscopic observation [Identifier] in Buccal smear by Cyto stain

0.00

0.0

1.0

—

(36032269) Testosterone Free [Moles/volume] in Serum or Plasma by calculation

0.00

0.0

1.3

—

258.0

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

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

0.92

0.00

1.1

1.2

—

1.1

—

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

0.00

0.0

1.2

—

40.0

—

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

0.00

0.0

3.0

—

(3017569) Oxygen content in Arterial blood

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

1.7

—

(3029080) Hemoglobin [Entitic mass] in Reticulocytes

0.00

0.0

1.3

—

34.8

—

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

0.00

0.0

1.0

—

(4027681)

0.00

0.0

1.4

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.0

—

(3016650) Hepatitis A virus Ab [Presence] in Serum

0.00

0.0

1.1

—

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

0.00

0.0

1.0

—

(3022756) Ceruloplasmin [Mass/volume] in Serum or Plasma

0.00

0.0

1.2

—

221.3

—

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

0.00

0.0

1.4

—

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.0

1.0

—

(3021788) Differential panel - Synovial fluid

0.00

0.0

1.2

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: CD2_BENIGN_RENALPELVIS_EXALLC – Benign neoplasm: Renal pelvis

GWS hits: -

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

NAME	CD2_BENIGN_RENALPELVIS_EXALLC
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	D301
HD_ICD_9	2231
HD_ICD_8	2231
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	D301
COD_ICD_9	2231
COD_ICD_8	2231
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

≡ Risteys

FG R12 + FR

FinnGen R11 + FinRegistry

FinnGen R10 + FinRegistry

FinnGen R10

FinnGen R9

FinnGen R8

FinnGen R7

FinnGen R6

FinnGen R5

FinnGen R4

FinnGen R3

Benign neoplasm: Renal pelvis

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

Summary Statistics

-FinRegistry-

-FinnGen-

Key figures

-FinnGen-

Age distribution of first events

-FinnGen-

Year distribution of first events

-FinnGen-

Cumulative Incidence Function

CodeWAS (R11)

LabWAS

Mortality – FinRegistry

Relationships between endpoints