Abnormal findings in bronchial washings nasal secretions pleural fluid sputum throat scrapings

R18_ABNORMAL_FINDI_BRONCHIAL_WASHI_NASAL_SECRE_PLEURAL_FLUID_SPUTUM_THROAT_SCRAP

No definition available.

Endpoint definition

↥

Report an error or suggest an improvement for this endpoint codes

Endpoint definition steps	FinnGen
Phenotype data	519972
1. Apply sex-specific rule None	519972
2. Check conditions None	519972
3. Check pre-conditions, main-only, mode, registry filters Registry filters: Hospital discharge: ICD-10 — R84 Cause of death: ICD-10 — R84 2 out of 7 registries used, show all original rules.	107
4. Check minimum number of events None	107
5. Include endpoints None	107
6. Filter based on genotype QC (FinnGen only)	103

Control definitions (FinnGen only)

Control exclude: R18_ABNORMAL_FINDI_EXAMI_OTHER_BODY_FLUIDS_SUBST_TISSU_WO_DIAGNOSIS

Extra metadata

Level in the ICD hierarchy: 3
First used in FinnGen datafreeze: DF4
Parent code in ICD-10: R8[3-9]
Name in latin: Reperta abnormia in speciminibus ex organis respiratoriis et thorace

NAME	R18_ABNORMAL_FINDI_BRONCHIAL_WASHI_NASAL_SECRE_PLEURAL_FLUID_SPUTUM_THROAT_SCRAP
CONTROL_EXCLUDE	R18_ABNORMAL_FINDI_EXAMI_OTHER_BODY_FLUIDS_SUBST_TISSU_WO_DIAGNOSIS
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	R84
HD_ICD_9
HD_ICD_8
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	R84
COD_ICD_9
COD_ICD_8
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 Abnormal findings in bronchial washings nasal secretions pleural fluid sputum throat scrapings 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-

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

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	103	46	57
Unadjusted period prevalence (%)	0.02	0.02	0.03
Median age at first event (years)	64.68	59.84	68.58

-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

↥

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.

Matched cohort

Matched cases
107: Matched controls
1070

Code

Vocabulary

Description

Odds Ratio

-log₁₀(p)

N matched cases

N matched controls

R84.6

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, abnormal cytological findings

+∞

35.4

UGC12

NOMESCO Finland

Flexible bronchoscopy

11.5

31.3

R84.9

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, unspecified abnormal finding

+∞

25.0

R91

ICD-10 Finland

Abnormal findings on diagnostic imaging of lung

7.2

20.2

R84.5

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, abnormal microbiological findings

+∞

18.2

R84.0

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, abnormal level of enzymes

+∞

17.1

R84.8

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, other abnormal findings

+∞

11.7

UJD10

NOMESCO Finland

Esophagoscopy, gastroscopy and duodenoscopy

3.5

9.1

209

XG412

NOMESCO Finland

Flow-volume spirometry with bronchospasmolysis

5.6

8.7

H02AB06

ATC

prednisolone; systemic

3.4

8.3

376

J15.9

ICD-10 Finland

Bacterial pneumonia, unspecified

4.5

8.1

R84.2

ICD-10 Finland

Abnormal findings in specimens from respiratory organs and thorax, abnormal level of other drugs, medicaments and biological substances

+∞

6.3

GD1AA

NOMESCO Finland

Thorax X-ray examination

2.8

6.2

382

J18.9

ICD-10 Finland

Pneumonia, unspecified

2.8

6.1

235

R06.0

ICD-10 Finland

Dyspnoea

2.8

6.0

214

J44.8

ICD-10 Finland

Other specified chronic obstructive pulmonary disease

3.5

6.0

LabWAS

↥

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

(3014162) Mycobacterium tuberculosis DNA [Presence] in Specimen by NAA with probe detection

8.52

9.27

4.3

1.8

—

(3019060) Gas panel - Arterial blood

4.38

7.97

5.8

3.4

—

(3051552) Clostridioides difficile toxin genes [Presence] in Stool by NAA with probe detection

4.34

7.34

2.0

1.4

—

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

145

3.10

6.49

2.5

1.8

—

(4062490) Immunoglobulin typing, IgG

13.88

5.69

2.3

1.3

—

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

3.22

5.68

2.1

1.7

—

(3051714) Fibrin D-dimer FEU [Mass/volume] in Platelet poor plasma

164

2.80

5.53

2.1

1.5

3.04

1.01

mg/l

0.51

128

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

3.15

5.48

2.1

1.7

—

(40760892) CBC W Ordered Manual Differential panel - Blood

383

2.57

5.35

10.7

5.7

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

4.90

5.20

4.8

3.4

1.80

1.19

0.91

(3023368) Bacteria identified in Blood by Culture

236

2.56

5.18

6.0

4.2

—

(3000494) Fungus identified in Specimen by Culture

3.21

5.18

2.8

1.5

—

(3013115) Eosinophils [#/volume] in Blood

416

2.43

4.74

10.6

5.5

0.18

0.19

e9/l

0.36

364

(3019198) Lymphocytes [#/volume] in Blood

411

2.39

4.57

10.4

5.2

1.74

2.00

e9/l

0.85

363

(3006315) Basophils [#/volume] in Blood

402

2.38

4.56

10.4

5.1

0.04

e9/l

0.14

344

(3001604) Monocytes [#/volume] in Blood

402

2.38

4.56

10.4

5.1

0.56

0.60

e9/l

0.59

346

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

378

2.34

4.44

12.5

5.2

1.19

1.21

mmol/l

1.30

344

(40761535) Cells panel - Urine sediment

3.09

4.38

5.7

3.3

—

(3042936) Bacteria identified in Isolate by Culture

119

2.70

4.33

3.9

1.8

—

(40768797) Stomach Pathology biopsy report

106

2.77

4.31

1.3

—

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

3.30

4.23

1.2

2.3

64.68

66.32

g/l

0.28

(3000991) Gas panel - Venous blood

3.08

4.18

13.0

7.1

—

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

3.37

4.17

2.1

1.4

—

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

404

2.27

4.14

13.0

5.6

1.20

1.21

mmol/l

0.75

342

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

179

2.42

4.12

5.9

3.5

—

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

6.01

4.08

1.2

1.8

0.28

0.23

g/l

—

(3023419) Bacteria identified in Sputum by Culture

6.91

4.07

5.2

3.4

—

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

10.58

4.07

2.6

2.7

—

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

103

2.71

4.03

12.4

5.8

103.00

103.88

mmol/l

0.37

103

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

311

2.22

3.95

4.8

3.3

—

(3020891) Body temperature

4.21

3.85

7.2

5.1

—

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

5.40

3.79

1.2

1.8

1.26

1.11

g/l

—

(3003458) Phosphate [Moles/volume] in Serum or Plasma

116

2.51

3.58

9.0

5.0

1.05

1.01

mmol/l

0.31

101

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

348

2.11

3.54

7.7

4.3

32.10

54.00

ng/l

0.89

263

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

5.35

3.45

1.8

1.4

—

(3022217) INR in Platelet poor plasma by Coagulation assay

415

2.09

3.43

19.2

16.6

1.51

1.32

inr

0.55

118

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

2.80

3.42

8.9

7.4

11.64

9.30

mmol/l

0.74

(3016293) Bicarbonate [Moles/volume] in Serum or Plasma

3.07

3.42

11.3

4.5

25.31

25.19

mmol/l

0.03

(3007853) Bacteria identified in Skin by Aerobe culture

2.60

3.36

2.6

1.6

—

(3022313) Gas panel - Capillary blood

3.14

3.33

9.4

2.8

—

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

134

2.36

3.33

1.2

13.06

21.30

iu/ml

—

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

210

2.16

3.33

6.5

4.1

0.00

estimate

—

(3015635) Cytomegalovirus IgM Ab [Units/volume] in Serum or Plasma

6.72

3.24

1.0

1.3

—

(4034850) Laboratory test

3.83

3.09

19.0

16.2

—

(3017918) Cytomegalovirus IgG Ab [Titer] in Serum or Plasma

6.15

3.07

1.1

1.2

—

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

4.13

3.07

2.1

1.3

—

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

362

1.99

3.06

4.4

2.3

—

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

3.52

3.05

17.7

7.1

—

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

4.99

2.98

1.8

1.4

—

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

4.99

2.98

5.4

1.2

—

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

480

1.98

2.90

12.5

8.8

4.21

4.24

e9/l

0.03

414

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

396

1.94

2.85

5.5

3.7

0.00

estimate

—

(3000492) Spirometry study

2.83

1.3

1.6

—

(3009343) pH of Capillary blood

2.63

2.79

9.6

2.8

—

7.44

—

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

402

1.89

2.67

5.6

3.7

0.00

estimate

—

(3024889) Methemoglobin/Hemoglobin.total in Venous blood

3.29

2.65

5.8

3.4

0.72

0.73

0.03

(3012095) Magnesium [Moles/volume] in Serum or Plasma

132

2.17

2.64

5.7

2.7

0.80

0.82

mmol/l

0.36

119

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

304

1.90

2.62

5.9

3.9

—

(3047007) Chlamydophila sp Ab [Presence] in Serum

5.70

2.58

1.0

—

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

396

1.87

2.57

7.1

4.9

0.00

estimate

—

(3028531) Enolase.neuron specific [Mass/volume] in Serum or Plasma

7.42

2.57

1.0

1.6

14.22

13.34

ug/l

—

(3009595) Pneumocystis jiroveci DNA [Presence] in Specimen by NAA with probe detection

7.42

2.57

1.2

1.4

—

(3007164) IgA [Mass/volume] in Serum or Plasma

141

2.11

2.57

1.9

1.5

2.71

3.17

g/l

0.22

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

5.22

2.43

1.0

1.1

—

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

107

2.20

2.41

1.4

1.6

—

(3042631) Mycobacterium sp identified in Specimen

6.49

2.39

2.4

4.1

—

(3012516) Albumin [Mass/volume] in Urine

235

1.88

2.33

3.7

3.0

30.42

56.43

mg/l

0.77

162

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

4.82

2.30

1.5

1.4

—

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

5.76

2.24

1.6

1.4

—

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

5.76

2.24

1.6

1.4

—

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

5.76

2.24

1.6

1.4

—

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

3.52

2.23

1.0

1.5

—

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

2.37

2.16

1.5

1.4

—

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

120

2.05

2.13

1.1

1.2

1.14

7.98

u/ml

—

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

654

1.88

2.12

14.2

6.4

86.45

79.40

u/l

0.60

609

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

113

2.07

2.10

1.5

1.6

—

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

5.18

2.09

1.0

1.1

—

(3021960) Folate [Moles/volume] in Serum or Plasma

209

1.84

2.07

1.9

1.5

21.27

19.99

nmol/l

0.17

173

(3037756) Immunofixation for Serum or Plasma

4.17

2.07

1.2

1.1

—

(3024928) Oxygen saturation in Venous blood

4.17

2.07

3.2

2.2

—

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

161

1.91

2.04

1.3

0.55

1.06

u/ml

—

(3028653) Carboxyhemoglobin/Hemoglobin.total in Arterial blood

2.52

2.03

16.5

6.9

1.30

1.27

0.06

(3006217) Methemoglobin/Hemoglobin.total in Arterial blood

2.52

2.03

16.8

6.9

0.73

0.70

0.08

(36304419) Bacteria [Presence] in Urine

229

1.79

1.97

3.1

—

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

3.91

1.96

1.7

1.3

—

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

3.91

1.96

1.2

1.3

—

(3026008) Bacteria identified in Urine by Culture

264

1.75

1.96

3.6

3.0

—

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

336

1.71

1.94

2.3

1.9

86.43

94.36

pmol/l

0.77

169

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

2.13

1.93

1.5

1.4

—

(3020682) Albumin/Creatinine [Ratio] in Urine

249

1.74

1.88

4.4

3.5

4.22

7.53

mg/mmol

0.82

163

(3027544) Mycobacterium sp identified in Sputum by Organism specific culture

4.31

1.84

4.6

3.9

—

(46236952) Glomerular filtration rate/1.73 sq M.predicted [Volume Rate/Area] in Serum, Plasma or Blood by Creatinine-based formula (MDRD)

2.38

1.81

4.2

3.6

55.00

57.04

ml/min/173m2

—

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

2.63

1.78

2.6

1.7

—

(3043409) Potassium [Moles/volume] in Arterial blood

2.80

1.76

6.1

3.2

3.79

4.03

mmol/l

—

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

3.98

1.73

1.2

1.1

—

(3025941) Bacteria identified in Stool by Culture

2.65

1.72

1.3

—

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

2.58

1.69

1.2

1.5

—

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

2.92

1.68

1.1

1.2

—

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

3.69

1.63

2.0

2.2

281.40

194.00

—

(3012158) Parainfluenza virus 2 RNA [Presence] in Specimen by NAA with probe detection

3.69

1.63

1.8

1.4

—

(3006262) Parainfluenza virus 3 RNA [Presence] in Specimen by NAA with probe detection

3.69

1.63

1.8

1.4

—

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

3.69

1.63

1.6

1.1

—

(3018418) pH of Serum or Plasma

242

1.66

1.59

3.7

3.8

7.41

—

(3044640) Blood type and Crossmatch panel - Blood

251

1.65

1.58

4.9

2.2

—

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

3.44

1.54

1.0

1.1

—

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

2.96

1.53

1.7

1.9

—

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

2.56

1.52

3.1

1.9

—

(3012336) Haptoglobin [Mass/volume] in Serum or Plasma

2.35

1.51

2.1

1.4

1.24

1.40

g/l

—

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

176

1.71

1.51

2.0

1.9

526.18

451.73

pmol/l

0.38

153

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

469

1.58

1.49

3.2

2.8

—

(3019225) pH of Specimen

1.99

1.49

10.0

3.6

—

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

2.60

1.48

2.1

1.1

—

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

186

1.68

1.46

5.1

2.1

—

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

2.83

1.45

1.7

1.3

—

(40758558) Short blood count panel - Blood

214

1.63

1.40

4.7

6.7

—

(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

2.24

1.38

2.3

1.6

—

(4200892) Spirometry reversibility

1.97

1.37

1.6

1.3

—

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

2.59

1.32

1.2

1.3

—

(3018095) Leukocytes [#/volume] in Urine

308

1.54

1.29

4.6

3.8

10.71

75.90

e6/l

2.53

227

(3022145) Colonoscopy Study observation

1.87

1.27

1.5

1.3

—

(36660697) Celiac disease serology panel - Serum

2.04

1.22

1.3

—

(3019832) Treponema pallidum Ab [Presence] in Serum

2.10

1.21

1.2

1.5

—

(3004588) Protein electrophoresis panel - Serum or Plasma

2.10

1.21

1.0

2.1

—

(3034770) Mitochondria Ab [Titer] in Serum

2.57

1.16

1.2

1.0

—

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

1.84

1.15

3.9

3.7

—

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

2.45

1.10

1.4

1.2

—

(3052851) Hemolysis interference index of Serum or Plasma

0.00

0.99

0.0

2.6

—

(3003510) Neisseria gonorrhoeae DNA [Presence] in Urine by NAA with probe detection

1.83

0.97

1.8

1.6

—

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

2.13

0.91

1.0

1.4

—

(3005229) Alpha 2 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

2.13

0.91

1.0

1.4

7.88

7.76

g/l

—

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

2.13

0.91

1.0

1.4

2.93

3.83

g/l

—

(3020460) C reactive protein [Mass/volume] in Serum or Plasma

804

1.53

0.89

37.8

14.5

18.61

23.26

mg/l

1.42

645

(3002582) Erythrocytes [#/volume] in Urine

273

1.42

0.87

3.8

3.3

10.79

69.96

e6/l

1.17

211

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

139

1.54

0.87

3.5

2.6

0.39

1.03

e6/l

1.54

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

1.54

0.68

5.9

10.3

—

(3015322) Alpha 1 globulin [Mass/volume] in Serum or Plasma by Electrophoresis

1.82

0.67

1.0

1.5

2.52

3.07

g/l

—

(1761868) Lipid panel - Serum or Plasma

263

0.71

0.67

4.0

3.0

—

(3002256) Pathology report gross observation

1.56

0.67

1.1

1.3

—

(3037467) Urinalysis macro (dipstick) panel - Urine

558

1.31

0.66

7.8

4.3

—

(3045414) Leukocytes [Presence] in Urine

1.76

0.64

2.8

1.5

—

(3022621) pH of Urine by Test strip

1.65

0.63

1.9

2.2

—

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

736

1.34

0.62

27.8

14.1

79.21

76.29

ml/min/173m2

0.55

608

(3024950) Chlamydia trachomatis DNA [Presence] in Urine by NAA with probe detection

1.57

0.56

1.9

1.8

—

(40761536) Microorganisms panel - Urine sediment

1.44

0.53

4.1

3.5

—

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

191

1.33

0.52

1.7

1.4

—

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

260

1.27

0.47

4.8

4.1

19.71

20.75

0.15

120

(3033319) Streptococcus pyogenes Ag [Presence] in Throat

1.34

0.40

1.6

1.5

—

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

844

1.24

0.31

38.9

17.1

84.89

81.96

umol/l

0.29

844

(3021589) Normoblasts [#/volume] in Blood

359

1.18

0.31

16.1

8.9

0.00

e9/l

0.71

293

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

131

1.26

0.29

4.3

2.7

2.50

1.13

e6/l

—

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

1.25

0.28

2.0

1.8

—

(40761511) CBC panel - Blood by Automated count

837

1.21

0.27

31.9

13.5

—

(3044889) 12 lead EKG panel

553

1.15

0.25

5.2

4.1

—

(3020059) Calcium [Moles/volume] corrected for albumin in Serum or Plasma

162

1.21

0.25

3.1

3.3

2.49

2.46

mmol/l

0.50

140

(3004716) Salmonella sp identified in Stool by Organism specific culture

1.37

0.24

1.2

1.3

—

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

0.00

0.21

0.0

2.3

—

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

0.00

0.21

0.0

2.3

—

105.27

—

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

0.00

0.21

0.0

2.3

—

4.04

—

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

0.00

0.21

0.0

1.3

—

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

0.00

0.21

0.0

1.3

—

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

0.00

0.21

0.0

1.3

—

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

0.00

0.21

0.0

1.3

—

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

0.00

0.21

0.0

1.3

—

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

0.00

0.21

0.0

1.3

—

(3023511) Choriogonadotropin [Units/volume] in Urine

0.00

0.21

0.0

1.3

—

(3049207) Fetal Trisomy 21 risk [Likelihood] Based on maternal age

0.00

0.21

0.0

1.4

—

(3005033) Fetal Nuchal fold Thickness US

0.00

0.21

0.0

1.4

—

(3043238) Trisomy 21 risk [Likelihood] in Fetus

0.00

0.21

0.0

1.5

—

(3019145) Choriogonadotropin.beta subunit free [Mass/volume] in Serum or Plasma

0.00

0.21

0.0

1.5

—

(40763531) Fetal Nuchal fold [Multiple of the median] Thickness adjusted for maternal weight

0.00

0.21

0.0

1.4

—

(46235831) Pregnancy associated plasma protein A [Multiple of the median] adjusted in Serum or Plasma

0.00

0.21

0.0

1.4

—

(3047352) Trisomy 18 risk [Likelihood] in Fetus

0.00

0.21

0.0

1.4

—

(3008714) Choriogonadotropin [Multiple of the median] adjusted in Serum or Plasma

0.00

0.21

0.0

1.4

—

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

0.00

0.21

0.0

2.0

—

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

1.24

0.20

3.0

3.2

0.03

0.08

e6/l

—

(3042111) Morphology [Interpretation] in Bone marrow Narrative

0.00

0.20

0.0

1.6

—

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

762

1.09

0.10

4.4

4.0

1.22

1.26

mmol/l

0.21

682

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

0.87

0.07

2.3

1.2

—

(40768804) Tissue Pathology biopsy report

316

1.06

0.06

2.6

2.0

—

(3041096) Erythrocytes [Presence] in Urine by Automated

219

1.06

0.05

4.2

3.5

—

(3013512) EKG study

253

0.98

0.00

5.8

4.2

—

(3035941) MCH [Entitic mass]

891

0.99

0.00

46.7

21.3

29.97

30.29

0.83

874

(4035726) Immunohistochemistry procedure

0.94

0.00

1.7

1.3

—

(3014148) Varicella zoster virus Ab [Titer] in Serum

0.00

-0.00

0.0

1.5

—

(3015183) Erythrocyte sedimentation rate

0.00

-0.00

0.0

1.6

—

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

0.90

-0.00

5.6

2.3

45.86

28.67

u/l

—

(3035933) Granulocytes/100 leukocytes in Blood

0.00

-0.00

0.0

1.0

—

(3014702) Chromogranin A [Moles/volume] in Serum or Plasma

0.00

-0.00

0.0

2.0

—

5.25

—

(3020491) Glucose [Moles/volume] in Blood

0.00

-0.00

0.0

2.4

—

6.24

—

(3053028) Streptococcus sp identified in Specimen by Organism specific culture

0.00

-0.00

0.0

1.0

—

(3021125) Hepatitis C virus RNA [Presence] in Serum or Plasma by NAA with probe detection

0.00

-0.00

0.0

1.4

—

(1617658) Protocol used for examination of sentinel lymph nodes

0.00

-0.00

0.0

1.0

—

(3040363) Hepatitis A virus IgG Ab [Presence] in Serum by Immunoassay

0.00

-0.00

0.0

1.0

—

(3000093) Morphology [Interpretation] in Blood Narrative

0.00

-0.00

0.0

1.1

—

(3009542) Hematocrit [Volume Fraction] of Blood

890

1.00

-0.00

48.2

21.5

38.91

39.98

0.77

838

(3018301) Testosterone Free [Moles/volume] in Serum or Plasma

0.00

-0.00

0.0

1.0

—

157.30

—

(3051651) Icteric interference index of Serum or Plasma

0.00

-0.00

0.0

2.3

—

(3029075) Extractable nuclear Ab panel - Serum

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

1.2

—

13.10

—

(3012202) Varicella zoster virus DNA [Presence] in Specimen by NAA with probe detection

0.00

-0.00

0.0

1.3

—

(3051611) Lipemic interference index of Serum or Plasma

0.00

-0.00

0.0

2.1

—

(3044936) Clostridioides difficile toxin A+B [Presence] in Stool by Immunoassay

0.00

-0.00

0.0

1.0

—

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

0.00

-0.00

0.0

2.4

—

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

0.00

-0.00

0.0

1.0

—

(3004915) Chlamydophila pneumoniae IgA Ab [Units/volume] in Serum

0.00

-0.00

0.0

1.0

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: R18_ABNORMAL_FINDI_BRONCHIAL_WASHI_NASAL_SECRE_PLEURAL_FLUID_SPUTUM_THROAT_SCRAP – Abnormal findings in bronchial washings nasal secretions pleural fluid sputum throat scrapings

GWS hits: -

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

≡ Risteys

R13

FinnGen R12 + FinRegistry

FinnGen R11 + FinRegistry

FinnGen R10 + FinRegistry

FinnGen R10

FinnGen R9

FinnGen R8

FinnGen R7

FinnGen R6

FinnGen R5

FinnGen R4

FinnGen R3

Abnormal findings in bronchial washings nasal secretions pleural fluid sputum throat scrapings

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

Upset plot

Case counts by code for Abnormal findings in bronchial washings nasal secretions pleural fluid sputum throat scrapings (R18_ABNORMAL_FINDI_BRONCHIAL_WASHI_NASAL_SECRE_PLEURAL_FLUID_SPUTUM_THROAT_SCRAP)

Summary Statistics

-FinRegistry-

-FinnGen-

Key figures

-FinnGen-

Age distribution of first events

-FinnGen-

Year distribution of first events

-FinnGen-

Cumulative Incidence Function

CodeWAS

Matched cohort

LabWAS

Mortality – FinRegistry

Relationships between endpoints