Calculus of urinary tract in diseases classified elsewhere

N14_CALCUINOTH

No definition available.

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 — N22* Cause of death: ICD-10 — N22* 2 out of 7 registries used, show all original rules.	32
4. Check minimum number of events None	32
5. Include endpoints None	32
6. Filter based on genotype QC (FinnGen only)	32

Control definitions (FinnGen only)

Control exclude: N14_UROLITHIASIS

Extra metadata

Level in the ICD hierarchy: 3
First used in FinnGen datafreeze: DF2

NAME	N14_CALCUINOTH
CONTROL_EXCLUDE	N14_UROLITHIASIS
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	N22
HD_ICD_9	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
HD_ICD_8	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	N22
COD_ICD_9	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
COD_ICD_8	$!$	The FinnGen clinical team has checked and no code can be used for this rule.
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 Calculus of urinary tract in diseases classified elsewhere based on the number of shared cases.

Similar with more cases:

Similar with less cases:

None

Case counts by codes

↥

FinnGen case counts by registry codes:

Upset plot

Full data table

Summary Statistics

↥

-FinRegistry-

Key figures

	All	Female	Male
Number of individuals
Whole population	243	88	153
Only index persons	232	87	145
Unadjusted period prevalence (%)
Whole population	0.00	0.00	0.00
Only index persons	0.00	0.00	0.01
Median age at first event (years)
Whole population	51.13	47.71	53.33
Only index persons	51.20	47.65	53.33

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	32	8	24
Unadjusted period prevalence (%)	0.01	0.00	0.01
Median age at first event (years)	54.19	43.78	57.66

-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

No data

-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

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

9.24

6.74

4.2

5.2

0.1

e6/l

—

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

4.66

4.23

4.8

3.5

—

(3026008) Bacteria identified in Urine by Culture

4.33

3.97

6.3

2.6

—

(3041096) Erythrocytes [Presence] in Urine by Automated

4.12

3.75

6.5

3.2

—

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

123

4.08

3.30

4.8

3.9

—

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

129

3.77

3.16

6.0

3.5

0.0

estimate

—

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

131

3.67

2.93

6.5

3.5

0.0

estimate

—

(3007853) Bacteria identified in Skin by Aerobe culture

3.59

2.46

1.1

1.6

—

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

130

3.22

2.39

10.5

4.6

0.0

estimate

—

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

104

3.04

2.35

7.2

3.7

—

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

2.99

2.23

1.2

1.4

—

(3012544) pH of Venous blood

3.96

2.10

7.7

4.3

—

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

166

2.78

1.83

9.5

3.9

7.0

6.7

mmol/l

0.24

154

(3015736) pH of Urine

100

2.49

1.68

7.2

3.6

—

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

2.45

1.57

4.9

3.5

0.0

estimate

—

(3044640) Blood type and Crossmatch panel - Blood

2.29

1.37

1.4

2.6

—

(3019225) pH of Specimen

2.92

1.26

1.0

6.5

—

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

131

2.11

1.17

7.4

6.7

12.6

10.9

umol/l

0.60

126

(40761536) Microorganisms panel - Urine sediment

2.63

1.13

3.2

3.0

—

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

2.18

1.11

3.4

3.5

—

(3013512) EKG study

2.18

1.11

3.2

4.5

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

0.00

1.03

0.0

1.1

—

(3023368) Bacteria identified in Blood by Culture

2.02

1.01

5.4

4.8

—

(3003396) Base excess in Arterial blood by calculation

2.50

1.00

10.5

8.0

2.3

0.5

mmol/l

—

(3042936) Bacteria identified in Isolate by Culture

2.20

0.98

2.0

1.6

—

(40760892) CBC W Ordered Manual Differential panel - Blood

2.05

0.98

4.5

5.6

—

(3022145) Colonoscopy Study observation

2.40

0.97

1.0

1.5

—

(40758558) Short blood count panel - Blood

2.10

0.97

4.4

9.0

—

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

2.14

0.97

1.4

1.7

—

(3019198) Lymphocytes [#/volume] in Blood

128

1.93

0.95

5.4

6.1

1.8

e9/l

0.18

115

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

2.31

0.95

2.0

1.9

1.5

1.4

—

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

1.95

0.93

7.0

2.4

2.3

mmol/l

0.60

(3000494) Fungus identified in Specimen by Culture

2.22

0.92

1.5

1.4

—

(3006315) Basophils [#/volume] in Blood

124

1.79

0.79

4.7

6.1

0.0

e9/l

0.42

109

(3001604) Monocytes [#/volume] in Blood

124

1.79

0.79

4.6

6.1

0.6

e9/l

0.18

110

(36304419) Bacteria [Presence] in Urine

1.87

0.78

5.0

2.7

—

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

206

1.97

0.77

9.6

7.1

80.2

76.6

u/l

0.18

194

(3005772) Bilirubin.conjugated [Moles/volume] in Serum or Plasma

2.00

0.72

3.2

5.0

8.3

umol/l

—

(3013115) Eosinophils [#/volume] in Blood

127

1.72

0.70

4.8

6.1

0.2

e9/l

0.35

115

(3021347) Calcium.ionized [Moles/volume] in Serum or Plasma

101

1.69

0.64

10.0

6.1

1.2

mmol/l

0.21

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

1.94

0.63

1.3

7.6

103.7

103.6

mmol/l

—

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

0.00

0.63

0.0

1.3

—

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

1.69

0.62

1.1

2.6

—

(4010399)

0.00

0.42

0.0

1.5

—

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

0.00

0.41

0.0

1.2

—

(3000492) Spirometry study

0.00

0.41

0.0

1.4

—

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

161

1.44

0.37

2.1

3.0

—

(3032080) INR in Blood by Coagulation assay

115

1.39

0.31

17.1

4.4

1.3

inr

—

(3002385) Erythrocyte distribution width [Ratio]

227

1.46

0.27

24.2

16.3

13.9

13.8

0.03

222

(3018677) aPTT in Platelet poor plasma by Coagulation assay

1.26

0.23

1.2

1.3

27.6

29.7

—

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

0.00

0.22

0.0

1.1

—

(3043747) Beta 2 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.22

0.0

1.1

—

4.4

—

(4034850)

0.00

0.21

0.0

13.6

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.21

0.0

1.5

—

(3044889) 12 lead EKG panel

190

0.78

0.21

4.5

4.0

—

(3020682) Albumin/Creatinine [Ratio] in Urine

1.19

0.17

6.9

4.4

4.1

12.1

mg/mmol

—

(40768804) Tissue Pathology biopsy report

1.26

0.16

2.0

2.1

—

(42870588) Differential panel, method unspecified - Blood

1.15

0.08

7.3

5.0

—

(1761868) Lipid panel - Serum or Plasma

112

1.11

0.03

3.1

3.0

—

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

194

1.08

0.01

4.5

3.1

55.4

60.3

u/l

0.11

185

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

135

1.07

0.00

4.1

4.2

21.1

22.1

—

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

1.08

0.00

2.8

100.1

161.8

ug/l

—

(3002523) Influenza virus A Ag [Presence] in Specimen

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

2.8

—

(40768795) Lymph node Pathology biopsy report

0.00

0.0

1.0

—

(3003181) Sodium [Moles/volume] in Urine

0.00

0.0

1.8

—

61.2

—

(3025245) SCL-70 extractable nuclear Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.5

—

(3044927) Protein electrophoresis panel - Urine

0.00

0.0

1.2

—

(3007844) Epstein Barr virus capsid IgM Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.4

—

(3028369) Herpes simplex virus 1+2 DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.4

—

(3029338) Protein.monoclonal band 3 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(3029379) Protein.monoclonal band 4 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

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

0.00

0.0

1.5

—

(3044290) Cell count panel - Cerebral spinal fluid

0.00

0.0

1.2

—

(3009508) Creatinine [Moles/volume] in Urine

1.02

0.00

6.0

3.2

7.8

8.5

mmol/l

—

(3031478) Chlamydophila pneumoniae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.4

—

(3039162) Centromere protein B Ab [Units/volume] in Serum

0.00

0.0

1.0

—

(40768443) Skin Pathology biopsy report

0.00

0.0

1.3

—

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

0.00

0.0

1.1

—

97.0

—

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

0.00

0.0

1.0

—

(3030692) Respiratory virus DNA+RNA [Identifier] in Specimen by NAA with probe detection

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

(3028271) Lactate [Moles/volume] in Capillary blood

0.00

0.0

1.8

—

1.7

—

(3049539) Genetic diseases [Identifier] in Blood or Tissue by FISH Nominal

0.00

0.0

1.2

—

(3015916) Alpha-1-Fetoprotein [Units/volume] in Serum or Plasma

0.00

0.0

1.3

—

2.2

—

(3003740) Influenza virus B Ag [Presence] in Specimen

0.00

0.0

1.0

—

(3041642) Human coronavirus 229E RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.2

—

(3016881) Enterovirus RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.8

—

(3004490) Bicarbonate [Moles/volume] standard in Capillary blood

0.00

0.0

4.9

—

24.1

—

(3043405) Microscopic observation [Identifier] in Specimen by Non-gynecological cytology method

0.00

0.0

1.8

—

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

0.00

0.0

1.4

—

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

0.00

0.0

1.3

—

(3040359) Human coronavirus NL63 RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.2

—

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

0.00

0.0

1.2

—

(3005322) IgE [Units/volume] in Serum or Plasma

0.00

0.0

1.4

—

109.8

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.5

—

3.6

—

(3015816) F5 gene p.Arg506Gln [Presence] in Blood or Tissue by Molecular genetics method

0.00

0.0

1.2

—

(3024928) Oxygen saturation in Venous blood

0.00

0.0

3.8

—

(43055361) Metamyelocytes/Leukocytes [Pure number fraction] in Blood by Manual count

0.00

0.0

2.4

—

(3019230) Fractional oxyhemoglobin in Venous blood

0.00

0.0

3.8

—

67.4

—

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

0.00

0.0

1.2

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.1

—

(3029713) Protein.monoclonal band 1 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.1

—

(3021584) Pregnancy associated plasma protein A [Units/volume] in Serum or Plasma

0.00

0.0

1.4

—

(3035797) Protein.monoclonal band 2 [Mass/volume] in Serum or Plasma by Electrophoresis

0.00

0.0

1.0

—

0.0

—

(4146454)

0.00

0.0

3.2

—

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

0.00

0.0

1.2

—

(3034770) Mitochondria Ab [Titer] in Serum

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

(3038546) Human coronavirus OC43 RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.2

—

Mortality – FinRegistry

↥

Association

Association between endpoint N14_CALCUINOTH and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have N14_CALCUINOTH.

N-year risk	Females	Males
1	No data	No data
5	No data	No data
10	No data	No data
15	No data	No data
20	No data	No data

Relationships between endpoints

↥

Index endpoint: N14_CALCUINOTH – Calculus of urinary tract in diseases classified elsewhere

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

Calculus of urinary tract in diseases classified elsewhere

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)

LabWAS

Mortality – FinRegistry

Association

Females

Males

Mortality risk

Relationships between endpoints