Cytomegaloviral pneumonitis

CMV_PNEUMONIA

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 — B25.0+, B25.0+J17.1 Hospital discharge: ICD-9 — 0785C Cause of death: ICD-10 — B25.0+, B25.0+J17.1 Cause of death: ICD-9 — 0785C 2 out of 7 registries used, show all original rules.	58
4. Check minimum number of events None	58
5. Include endpoints None	58
6. Filter based on genotype QC (FinnGen only)	58

Control definitions (FinnGen only)

Control exclude: IBD_CMV

Extra metadata

First used in FinnGen datafreeze: DF2

NAME	CMV_PNEUMONIA
CONTROL_EXCLUDE	IBD_CMV
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	B250
HD_ICD_9	0785C
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	B250
COD_ICD_9	0785C
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 Cytomegaloviral pneumonitis 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	414	182	224
Only index persons	268	122	146
Unadjusted period prevalence (%)
Whole population	0.01	0.01	0.01
Only index persons	0.01	0.00	0.01
Median age at first event (years)
Whole population	59.56	58.58	60.46
Only index persons	63.16	60.88	65.06

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	58	23	35
Unadjusted period prevalence (%)	0.01	0.01	0.02
Median age at first event (years)	65.03	59.17	68.87

-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

No data

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.

Matched cohort

Matched cases
54: Matched controls
539

Code

Vocabulary

Description

Odds Ratio

-log₁₀(p)

N matched cases

N matched controls

J17.1*B25.0

ICD-10 Finland

Cytomegaloviral pneumonitis

+∞

42.3

B25.0

ICD-10 Finland

Cytomegaloviral pneumonitis

+∞

23.7

TGC00

NOMESCO Finland

Bronchial lavation

51.2

17.2

UGC12

NOMESCO Finland

Flexible bronchoscopy

20.5

15.6

J18.9

ICD-10 Finland

Pneumonia, unspecified

10.8

14.4

J01EE01

ATC

sulfamethoxazole and trimethoprim; systemic

16.8

12.4

127

Kela drug reimbursment

Transplant complication

55.6

11.5

GD1AA

NOMESCO Finland

Thorax X-ray examination

9.2

11.2

190

117

Kela drug reimbursment

Leukaemia and other malignant diseases of the blood and bone marrow, and malignant diseases of the lymphatic tissue

17.0

10.8

H02AB04

ATC

methylprednisolone; systemic

9.4

10.6

L04AD01

ATC

ciclosporin; systemic

33.3

10.4

TK800

NOMESCO Finland

Hemodialysis

33.3

10.4

GD1UA

NOMESCO Finland

Thorax X-ray examination outside radiological department

7.7

9.9

L04AA06

ATC

mycophenolic acid; systemic

37.6

9.9

GCA98

NOMESCO Finland

Other bronchoscopic procedure on bronchus

120.0

9.7

B25.9

ICD-10 Finland

Cytomegaloviral disease, unspecified

+∞

9.6

J15.9

ICD-10 Finland

Bacterial pneumonia, unspecified

9.8

9.1

JN4AD

NOMESCO Finland

Body CT examination

10.7

8.7

J84.1

ICD-10 Finland

Other interstitial pulmonary diseases with fibrosis

105.7

8.7

J84.9

ICD-10 Finland

Interstitial pulmonary disease, unspecified

29.9

7.9

PH2AE

NOMESCO Finland

Ultrasound examination of lower leg veins

8.1

7.8

C03CA01

ATC

furosemide; systemic

5.2

7.8

124

TPH15

NOMESCO Finland

Insertion of central venous catheter through external or internal jugular vein

9.4

7.7

WD135

NOMESCO Finland

Demanding cystostatic therapy of methastized malignancy

92.1

7.6

JN3AE

NOMESCO Finland

Abdominal ultrasound examination

6.9

7.6

FB1BD

NOMESCO Finland

Extensive CT examination of arteria pulmonalis

9.9

7.5

B25.8

ICD-10 Finland

Other cytomegaloviral diseases

+∞

7.4

R50.9

ICD-10 Finland

Fever, unspecified

6.6

7.3

GD1DD

NOMESCO Finland

High resolution CT examination of lungs

11.0

7.0

GD1QA

NOMESCO Finland

Supine thorax X-ray examination

5.9

7.0

XW000

NOMESCO Finland

Bone marrow biopsy

10.3

6.8

WX872

NOMESCO Finland

Intensive care

11.5

6.7

TPH20

NOMESCO Finland

Insertion of central venous catheter through subclavian or brachiocephalic vein

17.1

6.7

J01MA12

ATC

levofloxacin; systemic

5.0

6.2

L04AX01

ATC

azathioprine; systemic

11.1

6.1

R91

ICD-10 Finland

Abnormal findings on diagnostic imaging of lung

7.0

6.1

LabWAS

↥

(ID) Name

N Cases

N Controls

-log₁₀(p)

cases

controls

cases

controls

unit

-log₁₀(p)

N cases

N controls

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

43.25

43.88

3.1

1.5

—

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

40.36

41.79

3.1

1.5

—

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

39.19

36.06

2.5

1.5

—

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

37.46

33.11

2.2

1.5

—

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

31.61

29.90

6.2

2.0

—

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

27.77

25.01

2.3

1.6

—

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

13.40

22.99

4.3

2.0

—

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

13.05

22.36

3.8

1.9

—

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

12.23

21.20

4.6

2.0

—

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

21.30

21.14

3.2

1.3

—

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

21.45

20.19

3.0

1.2

—

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

42.97

18.18

2.1

1.4

—

(3019060) Gas panel - Arterial blood

11.34

17.60

15.5

4.4

—

(3042936) Bacteria identified in Isolate by Culture

9.11

16.42

3.5

1.7

—

(3003396) Base excess in Arterial blood by calculation

8.15

14.07

17.8

8.1

1.2

1.5

mmol/l

0.16

(3023368) Bacteria identified in Blood by Culture

130

8.35

14.07

12.6

5.2

—

(44806118)

39.08

13.91

3.2

1.7

—

(44790049)

39.08

13.91

3.2

1.7

—

(44790048)

39.08

13.91

3.2

1.7

—

(44790047)

39.08

13.91

3.2

1.7

—

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

9.32

13.35

2.8

1.5

—

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

9.59

12.66

25.2

7.7

—

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

30.74

12.38

2.6

1.6

—

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

30.74

12.38

2.6

1.6

—

(3023419) Bacteria identified in Sputum by Culture

23.87

11.52

2.4

2.3

—

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

36.01

11.34

1.8

1.6

—

(42870588) Differential panel, method unspecified - Blood

162

6.77

10.91

20.7

5.3

—

(3002179) Metamyelocytes/100 leukocytes in Blood

7.30

10.74

8.1

3.5

0.3

0.6

—

(3028433) Virus identified in Specimen by Culture

+∞

10.74

1.3

0.0

—

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

13.34

10.48

1.9

1.2

—

(3002032) Base excess in Venous blood by calculation

6.53

10.47

9.3

3.5

-0.0

2.3

mmol/l

2.05

(3000494) Fungus identified in Specimen by Culture

6.23

10.19

3.2

1.5

—

(3012544) pH of Venous blood

6.27

10.03

11.0

3.5

—

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

27.27

9.86

2.0

1.3

—

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

5.70

9.42

5.0

2.3

24.7

21.3

0.49

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

5.61

9.25

2.0

1.8

—

(3037756) Immunofixation for Serum or Plasma

10.78

8.33

2.1

1.2

—

(3018418) pH of Serum or Plasma

138

4.87

8.22

14.1

4.2

7.4

—

(3042596) Human coronavirus RNA [Presence] in Specimen by NAA with probe detection

18.45

8.13

3.7

1.3

—

(3017181) Myelocytes/100 leukocytes in Blood

5.66

8.00

8.7

3.4

1.1

—

(40760888) Immunoglobulin light chains.free panel - Serum

9.86

7.82

3.3

3.7

—

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

236

5.59

7.44

36.5

6.7

1.2

mmol/l

0.35

190

(3020229) Cytomegalovirus DNA [Presence] in Specimen by NAA with probe detection

+∞

7.44

1.4

0.0

—

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

23.66

7.42

1.9

1.4

—

(3013115) Eosinophils [#/volume] in Blood

247

5.76

7.33

19.5

5.9

0.2

e9/l

0.85

227

(3006315) Basophils [#/volume] in Blood

242

5.35

7.05

17.2

5.8

0.0

e9/l

0.08

218

(3004588) Protein electrophoresis panel - Serum or Plasma

5.78

6.92

2.3

2.4

—

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

5.43

6.79

2.4

2.6

66.2

65.7

g/l

0.05

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

4.84

6.71

2.9

1.8

—

(3001604) Monocytes [#/volume] in Blood

241

4.87

6.52

17.5

5.7

0.8

0.6

e9/l

1.05

215

(3032080) INR in Blood by Coagulation assay

215

4.46

6.45

24.6

7.5

1.1

1.2

inr

—

(3019198) Lymphocytes [#/volume] in Blood

252

4.99

6.43

18.5

5.7

4.1

1.8

e9/l

0.60

230

(3024561) Albumin [Mass/volume] in Serum or Plasma

227

4.46

6.25

27.2

3.7

32.2

35.0

g/l

1.84

210

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

5.27

5.94

2.1

1.7

—

(3037467) Urinalysis macro (dipstick) panel - Urine

318

5.14

5.87

12.4

4.4

—

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

18.20

5.58

2.0

1.2

—

(3024471) HLA-A [Type]

+∞

5.28

1.0

0.0

—

(3024932) HLA-DR beta [Type]

+∞

5.28

1.2

0.0

—

(3026250) Tacrolimus [Mass/volume] in Blood

+∞

5.28

30.4

0.0

7.4

—

ug/l

—

(3042733) HLA Ab [Presence] in Serum

+∞

5.28

4.6

0.0

—

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

15.16

5.24

1.6

1.8

—

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

15.16

5.24

1.6

1.8

—

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

15.16

5.24

1.6

1.8

—

(3009343) pH of Capillary blood

4.95

5.21

11.2

3.4

—

7.4

—

(3007853) Bacteria identified in Skin by Aerobe culture

4.04

4.96

2.4

1.6

—

(3000991) Gas panel - Venous blood

4.25

4.85

10.1

6.9

—

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

3.83

4.80

2.7

1.6

—

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

216

3.46

4.78

15.8

3.7

—

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

8.63

4.54

2.9

1.0

—

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

10.07

4.43

1.5

1.1

—

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

3.64

4.13

8.7

3.1

23.9

8.9

umol/l

0.60

(40764126) Parainfluenza virus RNA [Presence] in Specimen by NAA with probe detection

11.14

4.13

4.1

1.1

—

(3012516) Albumin [Mass/volume] in Urine

147

2.95

3.93

6.4

3.3

2030.7

70.6

mg/l

0.52

(3042111) Morphology [Interpretation] in Bone marrow Narrative

9.74

3.89

2.6

1.6

—

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

9.74

3.89

1.9

1.1

—

(3032699) Streptococcus pneumoniae DNA [Presence] in Specimen by NAA with probe detection

13.15

3.85

2.5

1.4

—

(3023601) Vancomycin resistant enterococcus [Presence] in Specimen by Organism specific culture

13.15

3.85

1.3

3.0

—

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

13.15

3.85

1.8

1.2

—

(3037875) Bordetella parapertussis DNA [Presence] in Specimen by NAA with probe detection

13.15

3.85

2.8

1.0

—

(36305247) Microscopic observation [Identifier] in Isolate by Gram stain

7.53

3.81

1.5

1.3

—

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

119

2.93

3.77

1.5

15.5

20.9

nmol/l

2.04

(3021440) Promyelocytes/100 leukocytes in Blood

3.80

3.76

9.7

3.5

0.0

0.3

—

(40760892) CBC W Ordered Manual Differential panel - Blood

112

2.95

3.74

12.0

5.5

—

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

5.71

3.53

15.0

3.8

24.5

25.4

mmol/l

—

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

190

2.71

3.38

4.9

2.3

333.8

149.6

ug/l

1.53

167

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

133

2.73

3.36

4.5

2.8

0.6

0.4

e6/l

0.15

103

(3032035) Polymorphonuclear cells/100 leukocytes in Blood

9.38

3.34

14.0

2.0

53.5

61.6

—

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

191

2.69

3.33

1.9

97.3

96.5

pmol/l

0.04

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

174

2.68

3.33

7.1

3.0

—

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

104

2.80

3.29

2.0

1.5

2.3

2.5

g/l

0.21

(3022313) Gas panel - Capillary blood

5.12

3.27

14.0

3.6

—

(3044640) Blood type and Crossmatch panel - Blood

143

2.66

3.24

4.1

2.3

—

(3002582) Erythrocytes [#/volume] in Urine

145

2.61

3.13

4.4

2.9

37.2

37.8

e6/l

0.01

113

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

6.46

3.12

1.3

—

(40762485) Glomerular basement membrane Ab [Units/volume] in Serum by Immunoassay

10.76

3.03

1.2

—

(3018095) Leukocytes [#/volume] in Urine

165

2.52

2.94

5.7

3.5

9.1

39.8

e6/l

1.63

120

(3025159) Blasts/100 leukocytes in Blood

3.43

2.87

11.9

3.7

0.0

—

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

8.96

2.80

1.2

7.0

—

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

2.82

2.79

3.8

2.8

1.2

2.9

e6/l

—

(3019309) Folate [Moles/volume] in Red Blood Cells

2.56

2.67

1.9

1.7

1170.1

1362.9

nmol/l

0.36

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

2.73

2.64

3.8

2.6

0.6

0.7

e6/l

—

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

7.67

2.60

7.6

2.0

4.2

4.8

e9/l

—

(3024928) Oxygen saturation in Venous blood

7.67

2.60

4.2

2.3

—

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

382

2.82

2.50

33.8

7.4

101.2

80.4

u/l

0.50

356

(3013707) Erythrocyte sedimentation rate by Westergren method

361

2.59

2.16

13.9

4.1

26.2

11.8

mm/h

3.80

319

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

117

2.25

2.11

1.7

1.4

—

(3026008) Bacteria identified in Urine by Culture

142

2.18

2.08

5.1

3.0

—

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

102

2.28

2.07

4.2

2.3

—

(3021589) Normoblasts [#/volume] in Blood

222

2.13

2.06

25.6

12.0

0.0

e9/l

0.50

190

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

3.64

2.03

1.6

4.5

62.7

433.4

u/ml

—

(36304419) Bacteria [Presence] in Urine

127

2.18

2.02

5.0

2.9

—

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

4.86

1.98

1.4

1.5

—

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

2.85

1.90

12.4

5.3

24.5

25.2

mmol/l

—

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

3.59

1.79

4.5

2.3

—

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

4.10

1.75

1.0

1.2

—

(3025941) Bacteria identified in Stool by Culture

3.40

1.71

1.8

1.2

—

(3020682) Albumin/Creatinine [Ratio] in Urine

160

1.99

1.70

7.3

4.2

51.6

11.1

mg/mmol

0.52

100

(3037551) Cancer Ag 125 [Units/volume] in Serum or Plasma

3.80

1.65

6.6

2.2

65.2

77.2

u/ml

—

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

2.30

1.57

5.6

3.4

—

(40761535) Cells panel - Urine sediment

2.54

1.51

10.6

3.3

—

(3020891) Body temperature

2.92

1.47

3.3

5.6

—

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

3.32

1.47

1.2

1.3

—

(1616796) Gas panel - Central venous blood

3.32

1.47

4.4

2.9

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

2.60

1.44

4.9

3.0

0.9

1.2

—

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

2.60

1.44

1.4

1.2

—

(3012501) Base excess in Blood by calculation

3.12

1.39

8.0

2.4

2.5

1.8

mmol/l

—

(3013290) Carbon dioxide [Partial pressure] in Blood

3.12

1.39

8.0

2.4

4.7

4.9

kpa

—

(3027315) Oxygen [Partial pressure] in Blood

3.12

1.39

8.0

2.4

7.7

8.7

kpa

—

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

118

1.91

1.37

1.7

1.6

515.9

472.9

pmol/l

0.46

100

(40768443) Skin Pathology biopsy report

2.94

1.31

1.0

1.2

—

(4035726)

2.16

1.19

1.3

—

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

2.10

1.14

2.4

3.0

20.4

30.0

u/l

—

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

217

1.67

1.08

5.4

3.8

31.8

28.5

ng/l

0.21

165

(36660697) Celiac disease serology panel - Serum

2.13

1.04

1.1

1.3

—

(40758558) Short blood count panel - Blood

132

1.65

0.91

11.4

6.6

—

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

1.81

0.90

1.4

1.6

—

(3041096) Erythrocytes [Presence] in Urine by Automated

133

1.64

0.89

5.5

3.8

—

(3004529) Oxygen [Partial pressure] adjusted to patient's actual temperature in Venous blood

2.04

0.87

4.5

4.3

49.1

46.8

—

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

170

1.58

0.86

4.0

2.8

2537.1

959.5

ng/l

1.13

135

(3013139) Helicobacter pylori Ag [Presence] in Stool

0.00

0.81

0.0

1.2

—

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

128

1.59

0.78

2.2

1.7

1.6

1.3

mmol/l

1.17

104

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

260

1.51

0.77

4.1

3.0

—

(3019225) pH of Specimen

1.96

0.77

20.0

4.5

—

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

451

0.64

0.75

47.3

13.9

60.0

78.8

ml/min/173m2

3.36

364

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

2.01

0.72

1.4

2.4

0.0

0.1

e6/l

—

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

245

1.47

0.68

6.6

3.8

0.0

estimate

—

(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

1.86

0.68

2.2

2.1

—

(3022217) INR in Platelet poor plasma by Coagulation assay

1.71

0.67

19.4

30.7

—

1.5

—

(3048689) Calprotectin [Mass/mass] in Stool

1.66

0.64

13.6

1.6

137.9

159.9

ug/g

—

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

239

1.43

0.60

6.8

3.8

0.0

estimate

—

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

245

1.37

0.50

10.4

5.2

0.0

estimate

—

(40761536) Microorganisms panel - Urine sediment

1.49

0.48

5.7

4.1

—

(3013603) Prostate specific Ag [Mass/volume] in Serum or Plasma

232

0.73

0.46

3.5

5.4

1.9

2.0

ug/l

0.17

205

(3002256) Pathology report gross observation

1.53

0.45

1.1

1.3

—

(3008898) HLA-B27 [Presence]

0.00

0.42

0.0

1.1

—

(4010399)

1.51

0.41

2.6

1.2

—

(1761868) Lipid panel - Serum or Plasma

176

0.73

0.39

3.2

—

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

194

1.31

0.38

6.3

4.0

—

(3044889) 12 lead EKG panel

344

1.30

0.36

7.9

4.0

—

(40768804) Tissue Pathology biopsy report

176

1.30

0.36

2.5

2.1

—

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

193

0.76

0.33

3.1

4.3

29.4

21.6

—

(3009542) Hematocrit [Volume Fraction] of Blood

432

1.31

0.29

68.2

14.4

36.9

39.7

1.63

294

(3000492) Spirometry study

1.31

0.23

2.2

1.5

—

(3013512) EKG study

166

1.22

0.21

5.7

4.2

—

(40768793) Breast Pathology biopsy report

0.00

0.21

0.0

1.5

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.21

0.0

1.4

—

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

0.00

0.21

0.0

5.2

—

41.3

—

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

0.00

0.21

0.0

5.5

—

20.0

—

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

1.17

0.20

3.7

5.2

2.7

8.2

ug/l

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

450

1.23

0.18

9.9

6.6

42.7

40.8

mmol/mol

0.60

409

(40761511) CBC panel - Blood by Automated count

503

1.33

0.17

63.8

14.5

—

(3023103) Potassium [Moles/volume] in Serum or Plasma

503

1.33

0.17

78.5

16.6

4.0

mmol/l

0.45

490

(3019550) Sodium [Moles/volume] in Serum or Plasma

501

1.37

0.16

77.0

16.7

138.9

139.6

mmol/l

1.12

488

(3006923) Alanine aminotransferase [Enzymatic activity/volume] in Serum or Plasma

510

1.19

0.08

42.3

10.6

25.6

25.9

u/l

0.05

487

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

511

1.17

0.08

65.9

17.1

122.3

80.9

umol/l

2.52

511

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

111

1.10

0.04

7.4

3.6

—

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

469

1.01

0.00

7.5

4.8

6.3

6.0

mmol/l

0.47

418

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

349

1.01

0.00

3.2

3.7

15.4

14.9

pmol/l

0.53

300

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

143

0.97

0.00

5.8

4.0

0.0

estimate

—

(3005570) Glucose [Moles/volume] in Urine

0.00

0.0

1.5

—

(3000093) Morphology [Interpretation] in Blood Narrative

0.00

0.0

1.5

—

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

0.00

0.0

1.8

—

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

0.00

0.0

1.0

—

11.8

—

(3022145) Colonoscopy Study observation

0.88

0.00

2.8

1.3

—

(3032773) Endomysium IgG Ab [Titer] in Serum

0.00

0.0

1.0

—

(3030408) 3-Methoxytyramine [Moles/volume] in Serum or Plasma

0.00

0.0

1.3

—

(3026470) Cobalt [Mass/volume] in Blood

0.00

0.0

3.0

—

6.5

—

(3024731) MCV [Entitic volume]

530

1.00

0.00

90.9

21.9

92.6

91.0

1.23

520

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

0.00

0.0

1.2

—

(3010813) Leukocytes [#/volume] in Blood

530

1.00

0.00

91.3

22.1

9.6

6.6

e9/l

2.87

513

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

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

(40760847) Basement membrane Ab [Titer] in Serum by Immunofluorescence

0.00

0.0

1.2

—

(3038177) Helicobacter pylori Ab [Presence] in Serum

0.00

0.0

1.4

—

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

0.00

0.0

1.3

—

(3001019) Free T4 and TSH panel - Serum or Plasma

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.6

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

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

0.91

0.00

11.8

8.2

—

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

0.00

0.0

1.0

—

(3007461) Platelets [#/volume] in Blood

530

1.00

0.00

93.0

21.9

238.5

240.7

e9/l

0.06

516

(3035941) MCH [Entitic mass]

530

1.00

0.00

90.7

21.8

30.5

30.4

0.16

520

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

0.00

0.0

1.3

—

(40768797) Stomach Pathology biopsy report

0.87

0.00

2.0

1.3

—

(4306422)

0.00

0.0

1.2

—

(3043238) Trisomy 21 risk [Likelihood] in Fetus

0.00

0.0

1.6

—

(1617658) Protocol used for examination of sentinel lymph nodes

0.00

0.0

1.0

—

(3023511) Choriogonadotropin [Units/volume] in Urine

0.00

0.0

1.0

—

(3026361) Erythrocytes [#/volume] in Blood

530

1.00

0.00

91.1

21.9

4.0

4.5

e12/l

4.73

513

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

0.00

0.0

1.2

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.1

—

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

0.00

0.0

1.7

—

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

0.00

0.0

1.2

—

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

0.00

0.0

3.1

—

117.4

—

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

0.00

0.0

3.3

—

44.7

—

(3032155) Metanephrine Free [Moles/volume] in Serum or Plasma

0.00

0.0

1.3

—

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

0.00

0.0

1.3

—

(3047352) Trisomy 18 risk [Likelihood] in Fetus

0.00

0.0

1.2

—

(3005033) Fetal Nuchal fold Thickness US

0.00

0.0

1.2

—

(3000963) Hemoglobin [Mass/volume] in Blood

530

1.00

0.00

91.9

22.0

121.4

135.9

g/l

6.14

520

(3003191) Choriogonadotropin (pregnancy test) [Presence] in Serum or Plasma

0.00

0.0

1.4

—

(3045424) Erythrocytes [Presence] in Urine

0.00

0.0

1.4

—

Mortality – FinRegistry

↥

Association

Association between endpoint CMV_PNEUMONIA and mortality.

Females

Parameter	HR [95% CI]	p-value
CMV_PNEUMONIA	10.122 [4.72, 21.71]	< 0.001
Birth year	0.993 [0.98, 1.0]	0.105

During the follow-up period (1.1.1998 — 31.12.2019), 54 out of 114 females with CMV_PNEUMONIA died.

Males

Parameter	HR [95% CI]	p-value
CMV_PNEUMONIA	5.501 [3.25, 9.32]	< 0.001
Birth year	0.984 [0.97, 0.99]	0.002

During the follow-up period (1.1.1998 — 31.12.2019), 55 out of 111 males with CMV_PNEUMONIA died.

Mortality risk

Mortality risk for people of age

years, who have CMV_PNEUMONIA.

N-year risk	Females	Males
1	0.989%	1.02%
5	5.265%	5.537%
10	13.387%	14.094%
15	25.115%	23.732%
20	38.525%	37.855%

Relationships between endpoints

↥

Index endpoint: CMV_PNEUMONIA – Cytomegaloviral pneumonitis

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

Cytomegaloviral pneumonitis

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)

Matched cohort

LabWAS

Mortality – FinRegistry

Association

Females

Males

Mortality risk

Relationships between endpoints