Dysplastic lesion of the vagina of unknown severity

N14_VAGINAL_DYSPLASIA_NOS

No definition available.

Endpoint definition

↥

Endpoint definition steps	FinnGen
Phenotype data	520210
1. Apply sex-specific rule only females	293373
2. Check conditions None	293373
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — N89.3 Cause of death: ICD-10 — N89.3 2 out of 7 registries used, show all original rules.	38
4. Check minimum number of events None	38
5. Include endpoints None	38
6. Filter based on genotype QC (FinnGen only)	38

Control definitions (FinnGen only)

Controls for this endpoint are individuals that are not cases.

Extra metadata

First used in FinnGen datafreeze: DF7

NAME	N14_VAGINAL_DYSPLASIA_NOS
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX	2
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	N893
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	N893
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 Dysplastic lesion of the vagina of unknown severity 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	209	209	-
Only index persons	204	204	-
Unadjusted period prevalence (%)
Whole population	0.01	0.01	-
Only index persons	0.01	0.01	-
Median age at first event (years)
Whole population	-	56.19	-
Only index persons	-	55.04	-

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	38	38	-
Unadjusted period prevalence (%)	0.01	0.01	-
Median age at first event (years)	53.42	53.42	-

-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

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

3.67

1.57

1.2

1.1

—

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

2.90

1.43

3.3

1.1

—

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

2.53

1.18

1.3

1.6

—

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

1.96

1.06

2.4

1.3

—

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

0.00

1.02

0.0

4.0

—

87.9

—

(3023368) Bacteria identified in Blood by Culture

1.83

0.86

3.2

4.0

—

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

2.03

0.86

1.2

1.6

—

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

2.15

0.76

1.0

1.3

—

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

1.84

0.68

1.3

1.9

—

(40768443) Skin Pathology biopsy report

0.00

0.62

0.0

1.4

—

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

107

0.58

0.60

2.3

1.7

1.2

1.3

mmol/l

—

(3003785) Carcinoembryonic Ag [Mass/volume] in Serum or Plasma

1.64

0.56

2.0

4.1

3.8

5.8

ug/l

—

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

122

1.54

0.55

2.5

3.6

87.3

27.9

ng/l

—

(3029187) Natriuretic peptide.B prohormone N-Terminal [Mass/volume] in Serum or Plasma

0.54

0.53

5.8

2.9

978.2

680.0

ng/l

—

(3048689) Calprotectin [Mass/mass] in Stool

1.60

0.51

2.9

2.3

528.6

188.3

ug/g

—

(40763571) Iron/Transferrin [Ratio] in Serum or Plasma

1.49

0.48

2.1

2.7

34.2

22.7

—

(40768804) Tissue Pathology biopsy report

154

1.47

0.47

2.1

—

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

1.55

0.45

1.8

1.4

—

(21494755) Public health laboratory ask at order entry panel

1.59

0.43

1.0

1.3

—

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

1.45

0.42

2.4

2.0

—

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

0.00

0.42

0.0

2.4

—

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

0.00

0.42

0.0

2.3

—

(3019225) pH of Specimen

1.54

0.42

2.0

3.9

—

(3008898) HLA-B27 [Presence]

0.00

0.41

0.0

1.1

—

(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

0.00

0.41

0.0

1.3

—

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

0.61

0.38

1.2

1.3

—

(3013721) Aspartate aminotransferase [Enzymatic activity/volume] in Serum or Plasma

111

1.41

0.37

2.8

3.4

23.5

29.2

u/l

0.97

106

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

1.43

0.36

1.7

1.5

—

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

153

1.34

0.30

3.3

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)

314

0.79

0.29

11.3

12.9

83.1

80.8

ml/min/173m2

0.27

247

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

0.71

0.27

3.2

3.6

—

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

0.66

0.27

3.7

3.1

313.7

6687.5

umol/l

—

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

268

1.35

0.24

4.7

15.1

14.7

pmol/l

0.48

240

(3007220) Creatine kinase [Enzymatic activity/volume] in Serum or Plasma

109

0.77

0.24

1.7

1.9

194.7

135.8

u/l

—

104

(3007853) Bacteria identified in Skin by Aerobe culture

1.32

0.24

1.4

1.5

—

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

1.29

0.23

1.2

5.2

—

(3044640) Blood type and Crossmatch panel - Blood

1.31

0.23

2.4

1.9

—

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

0.00

0.22

0.0

2.4

—

(3034770) Mitochondria Ab [Titer] in Serum

0.00

0.22

0.0

1.1

—

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

0.00

0.22

0.0

1.5

—

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

0.00

0.22

0.0

1.4

—

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

0.00

0.22

0.0

1.5

—

(3042936) Bacteria identified in Isolate by Culture

1.30

0.21

2.2

1.8

—

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

0.00

0.21

0.0

1.3

—

(3023150) Myeloperoxidase Ab [Units/volume] in Serum

0.00

0.21

0.0

1.1

—

(4034850)

0.00

0.21

0.0

6.8

—

(3017766) Complement C4 [Mass/volume] in Serum or Plasma

0.00

0.21

0.0

1.1

—

0.2

—

(3015399) Transferrin receptor.soluble [Mass/volume] in Serum or Plasma

0.80

0.16

3.4

1.9

2.1

3.3

mg/l

—

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

228

0.82

0.16

6.1

4.9

—

549.7

—

(3037467) Urinalysis macro (dipstick) panel - Urine

227

0.83

0.14

5.7

4.4

—

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

125

0.83

0.12

6.6

4.1

—

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

0.83

0.08

3.0

3.1

7.3

5.2

e6/l

—

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

138

1.14

0.08

2.3

1.9

75.5

103.8

pmol/l

—

(3041096) Erythrocytes [Presence] in Urine by Automated

1.06

0.08

6.7

3.8

—

(3013512) EKG study

101

0.86

0.07

3.4

3.5

—

(3003338) MCHC [Mass/volume]

282

1.12

0.07

15.4

18.0

331.0

330.0

g/l

0.27

282

(3026008) Bacteria identified in Urine by Culture

110

0.88

0.06

6.9

3.1

—

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

150

1.12

0.05

4.2

3.1

139.2

80.8

ug/l

0.37

139

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

119

0.89

0.04

3.2

3.0

—

(40758558) Short blood count panel - Blood

102

1.11

0.03

2.6

7.5

—

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

236

0.94

0.01

3.6

2.9

—

(1761868) Lipid panel - Serum or Plasma

111

0.99

0.00

2.7

—

(42870588) Differential panel, method unspecified - Blood

109

1.01

0.00

6.0

5.6

—

(3015736) pH of Urine

135

0.94

0.00

4.6

3.8

—

(3044889) 12 lead EKG panel

233

0.97

0.00

3.7

3.6

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

(3012110) Lysozyme [Mass/volume] in Serum or Plasma

0.00

0.0

1.3

—

10.4

—

(3004616) Nuclear Ab [Presence] in Serum

0.00

0.0

1.2

—

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

0.00

0.0

2.0

—

133.0

—

(3011288) Drugs identified in Urine by Screen method

0.00

0.0

1.0

—

(4281824)

0.00

0.0

1.0

—

(4306422)

0.00

0.0

1.0

—

(4146454)

0.00

0.0

4.0

—

(3004809) Band form neutrophils/100 leukocytes in Blood

0.00

0.0

6.7

—

2.8

—

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

0.00

0.0

1.8

—

108.8

—

(3026285) Alpha 1 antitrypsin [Mass/volume] in Serum or Plasma

0.00

0.0

1.0

—

1.5

—

(3020629) Protein S Free Ag actual/normal in Platelet poor plasma by Immunoassay

0.00

0.0

1.0

—

101.8

—

(42868716) Shigella species+EIEC invasion plasmid antigen H ipaH gene [Presence] in Stool by NAA with probe detection

0.00

0.0

1.6

—

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

0.00

0.0

1.7

—

(3024522) Salmonella sp identified in Specimen by Organism specific culture

0.00

0.0

1.6

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.4

—

(3005988) Vibrio sp identified in Specimen by Organism specific culture

0.00

0.0

1.6

—

(3012568) Campylobacter sp identified in Specimen by Organism specific culture

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

(36304419) Bacteria [Presence] in Urine

0.92

0.00

3.4

2.8

—

(3001788) Aldosterone [Moles/volume] in Serum or Plasma

0.00

0.0

1.0

—

234.8

—

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

0.00

0.0

1.8

—

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

0.00

0.0

1.3

—

(3030905) Polymorphonuclear cells [#/volume] in Blood

0.00

0.0

2.2

—

7.6

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.3

—

(4094501)

0.00

0.0

1.0

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.0

—

(3003434) Protein [Mass/volume] in Pleural fluid

0.00

0.0

1.2

—

24.9

—

(3023420) DNA double strand Ab [Units/volume] in Serum

0.00

0.0

1.2

—

(3025468) Yersinia sp identified in Specimen by Organism specific culture

0.00

0.0

1.6

—

(3028707) Methadone [Presence] in Urine by Screen method

0.00

0.0

1.0

—

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

0.00

0.0

1.4

—

(3037756) Immunofixation for Serum or Plasma

0.00

0.0

1.6

—

(3042111) Morphology [Interpretation] in Bone marrow Narrative

0.00

0.0

1.2

—

(40769539) Bacteria identified based on 16S rRNA gene [Identifier] in Specimen by Sequencing

0.00

0.0

1.6

—

(21493466) Plesiomonas shigelloides DNA [Presence] in Stool by NAA with non-probe detection

0.00

0.0

1.6

—

(3032035) Polymorphonuclear cells/100 leukocytes in Blood

0.00

0.0

5.2

—

68.4

—

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

0.00

0.0

1.1

—

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

0.00

0.0

1.6

—

(40760888) Immunoglobulin light chains.free panel - Serum

0.00

0.0

7.6

—

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

0.00

0.0

1.6

—

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

0.00

0.0

1.8

—

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

0.00

0.0

1.0

—

(3004383) Neutrophil cytoplasmic Ab.classic [Titer] in Serum by Immunofluorescence

0.00

0.0

1.1

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.03

0.00

3.1

5.1

—

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

0.00

0.0

1.0

—

(4268621)

0.00

0.0

1.2

—

(3012477) Bordetella pertussis DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.6

—

(3025018) Bordetella pertussis Ab [Titer] in Serum

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.3

—

(1617658) Protocol used for examination of sentinel lymph nodes

0.00

0.0

1.0

—

(40762119) U1 small nuclear ribonucleoprotein 70kD Ab [Units/volume] in Serum

0.00

0.0

1.4

—

Mortality – FinRegistry

↥

Association

Association between endpoint N14_VAGINAL_DYSPLASIA_NOS and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have N14_VAGINAL_DYSPLASIA_NOS.

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_VAGINAL_DYSPLASIA_NOS – Dysplastic lesion of the vagina of unknown severity

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

Dysplastic lesion of the vagina of unknown severity

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