Risteys · AB1_BARTONELLOSIS

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 — A44 Hospital discharge: ICD-9 — 0880A Cause of death: ICD-10 — A44 Cause of death: ICD-9 — 0880A 2 out of 7 registries used, show all original rules.	23
4. Check minimum number of events None	23
5. Include endpoints None	23
6. Filter based on genotype QC (FinnGen only)	23

Summary Statistics

↥

-FinRegistry-

Key figures

	All	Female	Male
Number of individuals
Whole population	277	133	143
Only index persons	240	111	129
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	66.77	66.04	67.45
Only index persons	66.58	65.57	67.45

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	23	9	14
Unadjusted period prevalence (%)	0.00	0.00	0.01
Median age at first event (years)	55.97	46.66	61.96

-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

(40758558) Short blood count panel - Blood

4.76

3.08

6.4

6.9

—

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

10.17

2.89

3.6

7.3

11.0

8.2

mmol/l

—

(3023368) Bacteria identified in Blood by Culture

3.77

2.28

8.8

3.4

—

(3018418) pH of Serum or Plasma

3.67

2.27

4.8

4.7

—

7.4

—

(3033658) Prothrombin time (PT) actual/Normal

3.81

2.25

4.4

2.8

89.9

83.5

—

(3012544) pH of Venous blood

5.00

2.20

2.3

4.0

—

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

5.00

2.20

1.0

1.4

—

(36304419) Bacteria [Presence] in Urine

3.25

1.85

3.6

2.6

—

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

3.41

1.75

1.7

—

(3042936) Bacteria identified in Isolate by Culture

3.68

1.71

2.3

1.4

—

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

3.27

1.67

1.1

1.5

—

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

2.99

1.67

3.5

3.4

—

(3000494) Fungus identified in Specimen by Culture

3.49

1.63

2.2

1.5

—

(3021447) Carbon dioxide [Partial pressure] in Venous blood

3.95

1.61

2.0

3.6

5.0

6.1

kpa

—

(3013826) Glucose [Moles/volume] in Serum or Plasma

2.90

1.61

12.1

4.2

6.8

mmol/l

0.01

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

2.95

1.61

2.3

2.6

57.8

54.2

u/l

—

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

2.85

1.57

15.2

5.2

1.2

mmol/l

0.40

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

3.31

1.55

1.0

1.4

—

(42870588) Differential panel, method unspecified - Blood

2.70

1.49

11.3

5.9

—

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

2.63

1.36

16.5

5.9

1.2

mmol/l

0.69

(3019900) Cholesterol [Moles/volume] in Serum or Plasma

178

0.38

1.31

4.5

4.2

4.6

mmol/l

0.04

163

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

3.07

1.29

24.6

7.5

107.6

103.1

mmol/l

—

(3021337) Troponin I.cardiac [Mass/volume] in Serum or Plasma

2.90

1.26

2.6

2.7

12.1

170.1

ng/l

—

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

2.79

1.23

5.6

3.7

—

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

175

0.41

1.14

4.7

4.2

1.4

1.5

mmol/l

0.29

161

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

2.61

1.09

3.6

1.5

—

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

2.61

1.09

3.2

1.4

—

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

173

0.43

1.04

3.5

3.7

1.4

1.2

mmol/l

0.44

157

(3015736) pH of Urine

2.25

0.99

5.0

3.6

—

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

183

0.48

0.93

4.3

4.7

2.7

mmol/l

0.00

168

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

2.26

0.92

3.2

1.5

—

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

176

0.48

0.90

2.6

4.2

5.9

mmol/l

0.02

161

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

2.14

0.89

1.9

2.2

70.8

76.0

nmol/l

0.27

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

2.20

0.83

2.4

2.8

4.3

e6/l

—

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

2.13

0.82

2.7

1.6

1.9

1.3

mmol/l

—

(3044640) Blood type and Crossmatch panel - Blood

2.02

0.74

2.4

2.0

—

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

2.08

0.73

1.8

1.9

2.3

1.9

mg/l

—

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

1.78

0.65

2.9

2.2

139.7

91.9

ug/l

—

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

1.70

0.63

6.6

4.6

—

0.0

—

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

0.00

0.63

0.0

2.1

—

(3037467) Urinalysis macro (dipstick) panel - Urine

112

1.64

0.55

5.3

3.6

—

(3012516) Albumin [Mass/volume] in Urine

1.66

0.53

11.4

3.0

6145.2

45.2

mg/l

—

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

1.63

0.47

4.7

3.4

—

0.0

—

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

1.59

0.47

4.7

3.3

—

0.0

—

(3026782) Osmolality of Urine

1.78

0.47

3.0

2.2

637.2

522.1

mosm/kgh2o

—

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

0.00

0.43

0.0

1.6

—

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

1.67

0.41

2.7

2.0

—

(40761511) CBC panel - Blood by Automated count

179

0.65

0.36

17.3

8.5

—

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

125

0.65

0.36

2.3

3.8

14.9

15.0

pmol/l

—

113

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

1.35

0.31

5.6

3.4

—

(3026910) Gamma glutamyl transferase [Enzymatic activity/volume] in Serum or Plasma

120

1.42

0.29

3.8

2.7

227.0

46.5

u/l

0.94

112

(3026008) Bacteria identified in Urine by Culture

1.49

0.26

3.0

3.2

—

(3013512) EKG study

1.28

0.24

4.4

4.2

—

(3020682) Albumin/Creatinine [Ratio] in Urine

1.30

0.22

7.8

3.7

30.0

7.0

mg/mmol

—

(4034850)

0.00

0.22

0.0

12.0

—

(43534045) MCM6 gene c.-13910C>T and -13915T>G [Identifier] in Blood or Tissue by Molecular genetics method Nominal

0.00

0.22

0.0

1.0

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.22

0.0

1.6

—

(36660697) Celiac disease serology panel - Serum

0.00

0.22

0.0

1.0

—

(3000492) Spirometry study

0.00

0.21

0.0

1.6

—

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

153

0.78

0.19

2.7

4.5

1.7

1.9

mu/l

0.28

137

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

125

1.31

0.18

12.9

6.2

226.6

75.0

u/l

0.82

114

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

187

0.83

0.11

14.3

8.9

33.0

25.0

u/l

0.56

181

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

185

0.88

0.10

30.8

13.0

87.6

79.3

umol/l

0.48

185

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

1.12

0.10

3.7

3.2

18.5

95.3

ng/l

—

(40768804) Tissue Pathology biopsy report

1.11

0.09

3.1

2.0

—

(3044889) 12 lead EKG panel

116

0.90

0.01

3.6

3.4

—

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

111

0.98

0.00

3.9

3.1

—

(3009508) Creatinine [Moles/volume] in Urine

1.03

0.00

9.0

3.0

6.2

8.2

mmol/l

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

(3046870) Tissue transglutaminase IgG Ab [Units/volume] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

2.3

—

39.0

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

(3049717) Cytology report of Urine Cyto stain

0.00

0.0

1.5

—

(40768793) Breast Pathology biopsy report

0.00

0.0

1.0

—

(36032269) Testosterone Free [Moles/volume] in Serum or Plasma by calculation

0.00

0.0

2.4

—

190.8

—

(3004410) Hemoglobin A1c/Hemoglobin.total in Blood

162

0.96

0.00

5.9

5.4

40.2

38.9

mmol/mol

0.14

152

(3038177) Helicobacter pylori Ab [Presence] in Serum

0.00

0.0

1.2

—

(40761536) Microorganisms panel - Urine sediment

0.00

0.0

2.1

—

(3008898) HLA-B27 [Presence]

0.00

0.0

1.1

—

(40768443) Skin Pathology biopsy report

0.00

0.0

1.3

—

(3047007) Chlamydophila sp Ab [Presence] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

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

0.00

0.0

4.5

—

0.2

—

(3000330) Specific gravity of Urine by Test strip

0.00

0.0

4.7

—

(3045414) Leukocytes [Presence] in Urine

0.00

0.0

1.3

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.2

—

(1002224) Polysomnography panel

0.00

0.0

1.2

—

Mortality – FinRegistry

↥

Association

Association between endpoint AB1_BARTONELLOSIS and mortality.

Females

Parameter	HR [95% CI]	p-value
AB1_BARTONELLOSIS	3.038 [1.76, 5.24]	< 0.001
Birth year	0.996 [0.99, 1.0]	0.377

During the follow-up period (1.1.1998 — 31.12.2019), 52 out of 117 females with AB1_BARTONELLOSIS died.

Males

Parameter	HR [95% CI]	p-value
AB1_BARTONELLOSIS	3.094 [1.85, 5.17]	< 0.001
Birth year	0.988 [0.98, 1.0]	0.048

During the follow-up period (1.1.1998 — 31.12.2019), 71 out of 131 males with AB1_BARTONELLOSIS died.

Mortality risk

Mortality risk for people of age

years, who have AB1_BARTONELLOSIS.

N-year risk	Females	Males
1	0.256%	0.577%
5	1.872%	3.569%
10	4.49%	9.086%
15	9.085%	16.599%
20	15.4%	27.311%

Relationships between endpoints

↥

Index endpoint: AB1_BARTONELLOSIS – Bartonellosis

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

NAME	AB1_BARTONELLOSIS
CONTROL_EXCLUDE	AB1_OTHER_BACTERIAL
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	A44
HD_ICD_9	0880A
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	A44
COD_ICD_9	0880A
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

Bartonellosis

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