Benign neoplasm: Trachea

CD2_BENIGN_TRACHEA

Tracheal neoplasm: neoplasm of the trachea

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 — D14.2& Hospital discharge: ICD-9 — 2122 Hospital discharge: ICD-8 — 2122 Cause of death: ICD-10 — D14.2& Cause of death: ICD-9 — 2122 Cause of death: ICD-8 — 2122 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

Level in the ICD hierarchy: 3
First used in FinnGen datafreeze: DF2
Parent code in ICD-10: D14
Name in latin: Neoplasma benignum tracheae

NAME	CD2_BENIGN_TRACHEA
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	D142
HD_ICD_9	2122
HD_ICD_8	2122
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	D142
COD_ICD_9	2122
COD_ICD_8	2122
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: Trachea based on the number of shared cases.

Similar with more cases:

Similar with less cases:

Benign neoplasm: Trachea

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	308	135	170
Only index persons	223	104	119
Unadjusted period prevalence (%)
Whole population	0.00	0.00	0.00
Only index persons	0.00	0.00	0.00
Median age at first event (years)
Whole population	58.86	58.44	58.91
Only index persons	55.11	53.60	56.44

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	38	14	24
Unadjusted period prevalence (%)	0.01	0.00	0.01
Median age at first event (years)	56.68	47.54	62.01

-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

(3020779) Urea [Moles/volume] in Serum or Plasma

5.85

3.49

11.0

14.9

10.4

13.0

mmol/l

—

(3007853) Bacteria identified in Skin by Aerobe culture

4.17

3.16

1.7

1.3

—

(3044640) Blood type and Crossmatch panel - Blood

2.57

2.03

3.4

2.0

—

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

2.72

2.00

2.8

1.9

—

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

110

2.45

1.90

2.6

2.4

86.1

76.5

nmol/l

0.46

(3012544) pH of Venous blood

3.06

1.67

4.7

4.8

—

(4035726)

3.36

1.65

2.0

1.3

—

(3009508) Creatinine [Moles/volume] in Urine

2.24

1.52

2.2

2.7

7.6

7.5

mmol/l

0.03

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

128

2.19

1.50

5.2

3.9

—

(3042936) Bacteria identified in Isolate by Culture

2.56

1.50

2.7

1.5

—

(3000492) Spirometry study

3.04

1.33

1.6

1.5

—

(3002256) Pathology report gross observation

2.39

1.28

1.4

—

(40758558) Short blood count panel - Blood

2.08

1.12

13.9

6.3

—

(3019060) Gas panel - Arterial blood

2.46

1.06

10.8

3.6

—

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

2.00

1.04

1.3

1.8

—

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

2.44

0.98

1.7

1.5

—

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

135

1.81

0.95

8.9

6.0

1.2

mmol/l

0.30

118

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

2.18

0.91

1.2

1.7

—

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

106

0.49

0.90

3.7

2.1

38.7

57.3

u/l

—

101

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

2.11

0.89

1.7

1.4

—

(3020682) Albumin/Creatinine [Ratio] in Urine

1.80

0.85

3.1

3.5

5.5

11.9

mg/mmol

—

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

1.97

0.83

1.5

1.7

—

(40768804) Tissue Pathology biopsy report

112

1.74

0.81

3.3

2.4

—

(3019198) Lymphocytes [#/volume] in Blood

140

1.71

0.81

6.3

6.0

1.7

e9/l

0.13

127

(3000991) Gas panel - Venous blood

2.24

0.78

6.4

5.5

—

(3002032) Base excess in Venous blood by calculation

2.15

0.76

6.2

4.8

1.6

1.8

mmol/l

—

(3012516) Albumin [Mass/volume] in Urine

1.73

0.73

2.2

2.8

36.2

811.6

mg/l

—

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

268

1.85

0.73

4.3

4.2

1.2

1.3

mmol/l

0.04

241

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

265

0.60

0.73

5.2

4.3

1.9

2.1

mu/l

0.40

231

(3023368) Bacteria identified in Blood by Culture

1.70

0.70

3.9

—

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

1.90

0.69

1.2

1.9

—

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

145

1.62

0.68

10.1

7.4

1.2

mmol/l

0.32

123

(21494755) Public health laboratory ask at order entry panel

0.00

0.62

0.0

1.2

—

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

0.00

0.62

0.0

2.1

—

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

167

1.58

0.61

13.4

8.7

4.3

4.1

e9/l

0.10

144

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

1.84

0.61

1.5

1.8

—

(3032080) INR in Blood by Coagulation assay

129

1.58

0.60

17.9

10.2

1.2

1.3

inr

—

(1761868) Lipid panel - Serum or Plasma

100

0.63

0.48

4.6

3.2

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.57

0.47

4.4

6.5

—

(3015736) pH of Urine

113

0.63

0.46

4.3

5.0

—

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

1.70

0.45

10.8

4.4

122.4

122.3

g/l

—

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

1.47

0.43

1.3

1.4

—

(3049717) Cytology report of Urine Cyto stain

0.00

0.42

0.0

3.6

—

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

1.40

0.41

2.1

3.0

3.4

mg/l

—

(3044889) 12 lead EKG panel

197

1.42

0.40

5.4

4.1

—

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

115

0.72

0.34

4.0

5.7

—

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

1.36

0.33

3.1

2.7

10.4

14.2

umol/l

—

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

204

1.32

0.28

3.1

5.2

—

93.9

—

(3041096) Erythrocytes [Presence] in Urine by Automated

0.67

0.27

2.7

5.2

—

(40761511) CBC panel - Blood by Automated count

292

0.74

0.26

19.6

15.1

—

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

279

1.36

0.25

4.2

4.7

1.4

1.5

mmol/l

0.36

252

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

280

1.34

0.25

4.6

5.1

5.8

6.0

mmol/l

0.59

250

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

1.33

0.22

3.5

3.0

17.5

23.9

—

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

0.00

0.22

0.0

8.6

—

(3052851) Hemolysis interference index of Serum or Plasma

0.00

0.22

0.0

4.0

—

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

0.00

0.22

0.0

1.1

—

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

0.00

0.22

0.0

1.8

—

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

0.00

0.22

0.0

1.2

—

(3008898) HLA-B27 [Presence]

0.00

0.22

0.0

1.1

—

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

0.00

0.22

0.0

1.1

—

40.1

—

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

1.30

0.21

3.7

3.0

2.0

2.3

g/l

—

(3022914) Cancer Ag 19-9 [Units/volume] in Serum or Plasma

0.00

0.21

0.0

4.3

—

2192.0

—

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

0.00

0.21

0.0

2.1

—

(3014218) Bicarbonate [Moles/volume] standard in Arterial blood

0.00

0.21

0.0

4.5

—

24.4

—

(3001604) Monocytes [#/volume] in Blood

139

1.26

0.21

7.3

5.7

0.6

e9/l

0.09

123

(3006315) Basophils [#/volume] in Blood

139

1.26

0.21

7.3

5.8

0.0

e9/l

0.10

124

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

0.72

0.19

1.4

2.5

7.8

3.6

e6/l

—

(3013512) EKG study

0.80

0.16

3.6

4.7

—

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

286

1.23

0.16

5.1

5.3

2.6

mmol/l

0.02

258

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

113

1.23

0.16

2.5

3.4

—

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

123

1.22

0.15

1.8

2.0

116.6

97.1

pmol/l

—

(3037467) Urinalysis macro (dipstick) panel - Urine

204

1.19

0.13

3.4

5.1

—

(42870588) Differential panel, method unspecified - Blood

1.21

0.12

6.3

4.9

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

266

1.20

0.11

5.1

6.1

37.6

40.7

mmol/mol

2.48

245

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

164

0.86

0.10

1.9

2.9

—

(3026008) Bacteria identified in Urine by Culture

1.19

0.10

2.6

3.6

—

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

257

1.17

0.09

17.3

14.7

74.0

76.6

ml/min/173m2

0.17

211

(3013115) Eosinophils [#/volume] in Blood

147

1.15

0.09

7.5

5.9

0.2

e9/l

0.15

129

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

1.14

0.08

3.9

4.1

—

(3009542) Hematocrit [Volume Fraction] of Blood

238

1.15

0.08

21.8

15.0

40.1

39.4

0.20

168

(36304419) Bacteria [Presence] in Urine

1.11

0.08

2.0

2.9

—

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

297

0.90

0.08

25.6

18.6

93.7

84.8

umol/l

0.31

297

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

0.00

0.0

1.5

—

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

0.00

0.0

1.7

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.0

—

(42529201) Cancer Ag 19-9 [Units/volume] in Serum or Plasma by Immunoassay

0.00

0.0

2.8

—

50.4

—

(3008757) Leukocyte morphology finding [Identifier] in Blood

0.00

0.0

4.0

—

(3024172) Erythropoietin (EPO) [Units/volume] in Serum or Plasma

0.00

0.0

1.3

—

13.4

—

(3027456) Digoxin [Moles/volume] in Serum or Plasma

0.00

0.0

2.5

—

1.7

—

(3025023) Rhinovirus RNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.0

—

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

0.00

0.0

2.5

—

(42868544) Hantavirus puumala IgM Ab [Presence] in Serum or Plasma by Immunofluorescence

0.00

0.0

1.0

—

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

0.00

0.0

2.0

—

(3038515) Glucose [Moles/volume] in Venous blood

0.00

0.0

4.2

—

7.6

—

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

0.00

0.0

1.3

—

0.3

—

(21494434) Karyotype in Bone marrow

0.00

0.0

1.2

—

(3020565) Legionella pneumophila DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

1.7

—

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

0.00

0.0

3.4

—

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

0.00

0.0

2.6

—

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

0.00

0.0

1.6

—

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

0.00

0.0

2.6

—

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

0.00

0.0

1.6

—

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

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

—

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

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

(3002434) Lupus erythematosus deoxynucleoproteins IgG Ab [Units/volume] in Serum by Immunoassay

0.00

0.0

1.6

—

(4094501)

0.00

0.0

1.4

—

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

0.00

0.0

1.4

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.3

—

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

0.00

0.0

4.0

—

18.3

—

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

0.00

0.0

1.6

—

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

0.00

0.0

2.0

—

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

0.00

0.0

2.6

—

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

0.00

0.0

1.6

—

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

0.00

0.0

3.4

—

4.1

—

(42529200) Cancer Ag 15-3 [Units/volume] in Serum or Plasma by Immunoassay

0.00

0.0

5.2

—

214.2

—

(3000620) Complement C3 [Mass/volume] in Serum or Plasma

0.00

0.0

1.4

—

1.1

—

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

0.00

0.0

3.4

—

109.1

—

(3021387) Prolactin [Units/volume] in Serum or Plasma

0.00

0.0

2.1

—

453.2

—

(3018387) Mycoplasma pneumoniae IgG Ab [Units/volume] in Serum

0.00

0.0

1.1

—

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

0.00

0.0

4.0

—

(3008037) Lactate [Moles/volume] in Venous blood

0.00

0.0

4.8

—

1.6

—

(3043849) Epstein Barr virus DNA [Units/volume] (viral load) in Serum or Plasma by NAA with probe detection

0.00

0.0

1.6

—

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

0.00

0.0

2.0

—

(3049804) Myeloperoxidase IgG Ab [Units/volume] in Serum

0.00

0.0

1.1

—

(3002482) Mycoplasma pneumoniae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.0

—

(3027450) Sjogrens syndrome-B extractable nuclear Ab [Units/volume] in Serum

0.00

0.0

2.0

—

Mortality – FinRegistry

↥

Association

Association between endpoint CD2_BENIGN_TRACHEA and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have CD2_BENIGN_TRACHEA.

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: CD2_BENIGN_TRACHEA – Benign neoplasm: Trachea

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: Trachea

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