Benign lipomatous neoplasm of intrathoracic organs

CD2_BENIGN_LIPO_INTRA_ABD_EXALLC

No definition available.

Endpoint definition

↥

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 — D17.4& Cause of death: ICD-10 — D17.4& 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	-

Control definitions (FinnGen only)

Control exclude: C3_CANCER, C3_CANCER_WIDE

Extra metadata

Level in the ICD hierarchy: 3
First used in FinnGen datafreeze: DF2
Parent code in ICD-10: D17
Name in latin: Neoplasma benignum lipomatosum organorum intrathoracalium

NAME	CD2_BENIGN_LIPO_INTRA_ABD_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	D174
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	D174
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 Benign lipomatous neoplasm of intrathoracic organs based on the number of shared cases.

Similar with more cases:

Similar with less cases:

Benign lipomatous neoplasm of intrathoracic organs

Case counts by codes

↥

FinnGen case counts by registry codes:

No upset plot: script not run.

No upset table: script not run.

Summary Statistics

↥

-FinRegistry-

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

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	51	33	18
Unadjusted period prevalence (%)	0.01	0.01	0.01
Median age at first event (years)	53.54	53.23	54.11

-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

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

2.96

2.39

1.8

1.6

—

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

5.40

2.12

1.2

1.3

—

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

4.38

2.10

1.2

1.1

—

(40768804) Tissue Pathology biopsy report

153

2.24

2.06

2.4

1.5

—

(36304419) Bacteria [Presence] in Urine

2.35

2.04

2.0

3.2

—

(4035726)

4.14

1.76

1.2

—

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

0.00

1.61

0.0

1.5

—

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

3.34

1.47

1.6

1.5

—

(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

3.14

1.39

2.4

1.2

—

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

2.18

1.36

2.2

3.2

1.5

0.8

e6/l

—

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

2.44

1.31

2.0

1.6

—

(3002256) Pathology report gross observation

2.48

1.22

1.3

1.0

—

(3023520) Reticulocytes [#/volume] in Blood

0.00

1.19

0.0

3.1

—

68.8

—

(3026008) Bacteria identified in Urine by Culture

134

1.81

1.15

1.8

3.1

—

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

180

1.76

1.13

2.6

3.7

—

(1761868) Lipid panel - Serum or Plasma

167

0.50

1.11

2.7

3.0

—

(3000991) Gas panel - Venous blood

2.22

1.08

4.7

11.0

—

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

128

1.77

1.06

1.8

3.3

—

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

2.16

1.04

1.9

1.7

—

(3048689) Calprotectin [Mass/mass] in Stool

1.99

1.04

1.9

105.7

84.0

ug/g

0.33

(3004588) Protein electrophoresis panel - Serum or Plasma

0.00

1.01

0.0

1.2

—

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

0.00

1.00

0.0

1.4

—

(3018095) Leukocytes [#/volume] in Urine

139

1.72

1.00

3.3

3.9

30.6

60.7

e6/l

0.48

(3002582) Erythrocytes [#/volume] in Urine

113

1.76

0.99

1.9

3.4

24.8

25.4

e6/l

—

(3018418) pH of Serum or Plasma

114

1.74

0.95

2.1

3.8

7.4

—

(3044640) Blood type and Crossmatch panel - Blood

114

1.74

0.95

2.4

2.0

—

(4010399)

2.29

0.95

1.0

1.3

—

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

106

1.74

0.93

2.1

3.4

0.9

0.4

e6/l

0.27

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

1.77

0.90

2.6

2.0

—

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

1.99

0.85

1.3

1.9

—

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

240

1.61

0.84

7.2

5.9

4.3

4.2

e9/l

0.14

213

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

136

1.63

0.83

3.4

2.0

2.4

mmol/l

0.63

111

(40768797) Stomach Pathology biopsy report

1.86

0.83

1.1

1.3

—

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

336

1.68

0.77

3.9

4.2

15.7

15.0

pmol/l

0.70

309

(3007853) Bacteria identified in Skin by Aerobe culture

1.75

0.66

1.3

1.6

—

(3021440) Promyelocytes/100 leukocytes in Blood

1.80

0.65

3.6

4.5

—

0.3

—

(3002179) Metamyelocytes/100 leukocytes in Blood

1.80

0.65

2.0

4.7

—

0.8

—

(3025159) Blasts/100 leukocytes in Blood

1.80

0.65

3.6

4.5

—

0.0

—

(3000330) Specific gravity of Urine by Test strip

0.00

0.62

0.0

5.1

—

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

0.00

0.61

0.0

1.2

—

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

1.65

0.56

1.3

3.5

47.3

137.0

ng/l

—

(21494755) Public health laboratory ask at order entry panel

1.65

0.56

1.2

1.4

—

(3042936) Bacteria identified in Isolate by Culture

1.57

0.50

1.4

1.9

—

(3023368) Bacteria identified in Blood by Culture

1.52

0.50

2.8

2.9

—

(3000494) Fungus identified in Specimen by Culture

1.46

0.47

1.6

—

(3041942) Cyclic citrullinated peptide Ab [Units/volume] in Serum

1.53

0.46

1.6

1.3

41.6

14.4

u/ml

—

(3017181) Myelocytes/100 leukocytes in Blood

1.57

0.42

3.6

4.2

—

1.2

—

(36032419) SARS-CoV-2 (COVID-19) Ag [Presence] in Upper respiratory specimen by Immunoassay

0.00

0.42

0.0

1.6

—

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

0.00

0.41

0.0

1.5

—

6.8

—

(3000492) Spirometry study

1.47

0.40

1.4

1.5

—

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

1.41

0.33

2.2

1.4

—

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

106

0.71

0.33

1.0

1.3

—

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

1.29

0.31

6.0

6.2

—

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

1.34

0.29

5.8

3.1

—

(3044889) 12 lead EKG panel

302

1.26

0.27

3.6

4.0

—

(3015736) pH of Urine

174

1.25

0.25

3.9

3.3

—

(3032080) INR in Blood by Coagulation assay

155

1.25

0.24

12.1

9.0

1.5

1.2

inr

—

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

143

0.79

0.22

4.6

1.8

45.3

55.3

u/l

1.00

125

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

255

1.22

0.22

3.1

2.7

—

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

0.00

0.21

0.0

1.2

—

(3000764) Benzodiazepines [Presence] in Urine

0.00

0.21

0.0

1.2

—

(3028300) Cannabinoids [Presence] in Urine

0.00

0.21

0.0

1.2

—

(3027008) Opiates [Presence] in Urine

0.00

0.21

0.0

1.2

—

(3016879) Cocaine [Presence] in Urine

0.00

0.21

0.0

1.2

—

(3011288) Drugs identified in Urine by Screen method

0.00

0.21

0.0

1.1

—

(3019230) Fractional oxyhemoglobin in Venous blood

0.00

0.21

0.0

3.0

—

51.9

—

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

0.00

0.21

0.0

1.6

—

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

0.00

0.21

0.0

1.7

—

135.7

—

(3051387) C reactive protein [Mass/volume] in Capillary blood

0.00

0.21

0.0

3.8

—

24.8

—

(3027944) Amphetamines [Presence] in Urine

0.00

0.21

0.0

1.2

—

(3024928) Oxygen saturation in Venous blood

0.00

0.21

0.0

2.7

—

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

0.00

0.21

0.0

1.4

—

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

1.29

0.20

1.6

1.9

790000530.0

463.9

pmol/l

—

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

0.00

0.20

0.0

1.2

—

0.3

—

(3034860) Kappa light chains.free [Mass/volume] in Serum

0.00

0.20

0.0

1.4

—

48.9

—

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

0.00

0.20

0.0

1.3

—

1.1

—

(3047169) Lambda light chains.free [Mass/volume] in Serum or Plasma

0.00

0.20

0.0

1.4

—

31.0

—

(3015171) Extractable nuclear Ab [Units/volume] in Serum

0.00

0.20

0.0

1.4

—

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

0.00

0.20

0.0

5.1

—

(40760892) CBC W Ordered Manual Differential panel - Blood

100

1.26

0.20

2.6

4.1

—

(3022145) Colonoscopy Study observation

1.20

0.20

1.3

—

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

0.72

0.18

1.4

1.9

—

(3003338) MCHC [Mass/volume]

370

1.23

0.18

17.6

15.4

331.1

332.2

g/l

0.35

370

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

414

1.25

0.15

15.0

10.9

83.9

77.9

ml/min/173m2

1.50

323

(40758558) Short blood count panel - Blood

1.20

0.13

3.9

5.1

—

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

0.82

0.08

1.8

1.6

—

(3013512) EKG study

132

0.88

0.07

3.5

3.9

—

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

172

0.90

0.07

1.6

1.8

134.7

94.6

pmol/l

—

(3012516) Albumin [Mass/volume] in Urine

131

1.09

0.04

3.0

3.7

7.4

569.1

mg/l

—

(3037467) Urinalysis macro (dipstick) panel - Urine

294

1.05

0.00

4.5

4.0

—

(3009542) Hematocrit [Volume Fraction] of Blood

397

1.04

0.00

15.6

13.4

41.1

40.2

0.53

280

(3041096) Erythrocytes [Presence] in Urine by Automated

123

0.97

0.00

2.6

3.6

—

(42870588) Differential panel, method unspecified - Blood

135

0.95

0.00

3.3

5.9

—

(3020682) Albumin/Creatinine [Ratio] in Urine

138

1.02

0.00

3.9

4.6

9.9

mg/mmol

—

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

0.00

0.0

1.5

—

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

0.00

0.0

2.9

—

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

0.00

0.0

1.0

—

14.6

—

(3037756) Immunofixation for Serum or Plasma

0.00

0.0

1.0

—

(1175715) Chlamydophila pneumoniae IgM Ab [Presence] in Serum by Immunoassay

0.00

0.0

1.2

—

(4268621)

0.00

0.0

2.0

—

(4306422)

0.00

0.0

1.3

—

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

0.00

0.0

2.6

—

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

0.00

0.0

1.6

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.0

1.3

—

(3021788) Differential panel - Synovial fluid

0.00

0.0

1.1

—

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

170

1.00

0.00

4.1

3.6

—

(3023410) Appearance of Cerebral spinal fluid

0.00

0.0

1.2

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

5.8

—

1.3

—

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

0.00

0.0

1.0

—

(3027953) Aldolase [Enzymatic activity/volume] in Serum or Plasma

0.00

0.0

1.3

—

12.0

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.0

1.3

—

7.4

—

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

0.00

0.0

1.6

—

11.6

—

(4027681)

0.00

0.0

1.0

—

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

0.00

0.0

5.8

—

7.6

—

(40760888) Immunoglobulin light chains.free panel - Serum

0.00

0.0

1.3

—

(3050129) First trimester maternal screen panel - Serum or Plasma

0.00

0.0

1.6

—

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

0.00

0.0

1.0

—

(3010421) pH of Blood

0.00

0.0

1.4

—

7.4

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

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

0.00

0.0

2.6

—

107.0

—

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

0.00

0.0

2.3

—

5.7

—

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

0.00

0.0

1.4

—

(21494890) Protein electrophoresis panel - 24 hour Urine

0.00

0.0

1.1

—

(3051611) Lipemic interference index of Serum or Plasma

0.00

0.0

2.2

—

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

0.00

0.0

2.6

—

4.1

—

(3042111) Morphology [Interpretation] in Bone marrow Narrative

0.00

0.0

2.1

—

(3025130) Human papilloma virus identified in Specimen

0.00

0.0

1.8

—

(40761511) CBC panel - Blood by Automated count

461

0.98

0.00

11.1

10.3

—

(3016914) Bacteria identified in Cerebral spinal fluid by Culture

0.00

0.0

1.2

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

(3003265) Liver kidney microsomal Ab [Titer] in Serum by Immunofluorescence

0.00

0.0

1.8

—

(3045142) Bone marrow Pathology biopsy report

0.00

0.0

1.0

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.0

1.3

—

5.2

—

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

0.00

0.0

1.0

—

(3003181) Sodium [Moles/volume] in Urine

0.00

0.0

1.3

—

61.4

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

(1616796) Gas panel - Central venous blood

0.00

0.0

2.0

—

(3011648) Oxygen content in Venous blood

0.00

0.0

2.6

—

10.8

—

(3017817) Protein [Mass] in Urine collected for unspecified duration

0.00

0.0

1.6

—

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

0.00

0.0

1.2

—

(4062490)

0.00

0.0

1.8

—

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

0.00

0.0

2.9

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.0

—

1.3

—

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

0.00

0.0

1.0

—

(3021901) Oxygen saturation in Capillary blood

0.00

0.0

2.8

—

(3046294) Neutrophil cytoplasmic Ab.classic [Titer] in Serum

0.00

0.0

1.3

—

(21494434) Karyotype in Bone marrow

0.00

0.0

1.0

—

(3032035) Polymorphonuclear cells/100 leukocytes in Blood

0.00

0.0

4.4

—

60.9

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: CD2_BENIGN_LIPO_INTRA_ABD_EXALLC – Benign lipomatous neoplasm of intrathoracic organs

GWS hits: -

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

≡ 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 lipomatous neoplasm of intrathoracic organs

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