Bacterial agents resistant to antibiotics

U22_BACTERIAL_AGENTS_RESISTANT_ANTIBI

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 — U80-U89 Cause of death: ICD-10 — U80-U89 2 out of 7 registries used, show all original rules.	33
4. Check minimum number of events None	33
5. Include endpoints U22_AGENT_RESISTANT_PENICILLIN_RELATED_ANTIBI U22_AGENT_RESISTANT_VANCOMYCIN_RELATED_ANTIBI U22_AGENT_RESISTANT_MULTIPLE_ANTIBI U22_AGENT_RESISTANT_OTHER_UNSPE_ANTIBI	33
6. Filter based on genotype QC (FinnGen only)	33

Control definitions (FinnGen only)

Controls for this endpoint are individuals that are not cases.

Extra metadata

Level in the ICD hierarchy: 2
First used in FinnGen datafreeze: DF4
Parent code in ICD-10: U

NAME	U22_BACTERIAL_AGENTS_RESISTANT_ANTIBI
CONTROL_EXCLUDE
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE	U22_AGENT_RESISTANT_PENICILLIN_RELATED_ANTIBI\|U22_AGENT_RESISTANT_VANCOMYCIN_RELATED_ANTIBI\|U22_AGENT_RESISTANT_MULTIPLE_ANTIBI\|U22_AGENT_RESISTANT_OTHER_UNSPE_ANTIBI
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	U8
HD_ICD_9
HD_ICD_8
HD_ICD_10_EXCL
HD_ICD_9_EXCL
HD_ICD_8_EXCL
COD_MAINONLY
COD_ICD_10	U8
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 Bacterial agents resistant to antibiotics based on the number of shared cases.

Similar with more cases:

Similar with less cases:

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	33	22	11
Unadjusted period prevalence (%)	0.01	0.01	0.00
Median age at first event (years)	65.82	65.83	65.80

-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

(3007853) Bacteria identified in Skin by Aerobe culture

7.65

7.22

7.5

1.3

—

(3024354) Oxygen [Partial pressure] in Venous blood

7.00

5.72

4.8

3.1

4.4

5.1

kpa

0.70

(3012544) pH of Venous blood

5.85

4.78

6.6

3.0

—

(3023368) Bacteria identified in Blood by Culture

4.78

4.68

7.8

4.1

—

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

5.61

4.58

6.6

2.9

6.2

5.6

kpa

0.63

(3002032) Base excess in Venous blood by calculation

5.61

4.58

6.6

2.9

3.7

3.2

mmol/l

0.17

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

12.23

4.23

1.4

—

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

9.16

4.13

3.8

7.5

—

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

7.28

3.98

2.6

1.4

—

(3000330) Specific gravity of Urine by Test strip

7.15

3.59

3.7

6.6

—

(3042936) Bacteria identified in Isolate by Culture

4.14

3.38

3.9

1.8

—

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

5.84

3.15

5.5

3.4

57.1

52.7

—

(3026008) Bacteria identified in Urine by Culture

3.56

3.13

7.9

3.4

—

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

3.96

3.03

4.6

2.9

15.5

26.1

1.34

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

3.71

2.92

4.3

2.7

10.0

16.2

umol/l

1.27

(3022621) pH of Urine by Test strip

6.02

2.90

4.7

2.1

—

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

3.37

2.85

4.9

2.0

3.5

3.1

mg/l

0.24

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

6.38

2.67

5.0

2.6

1.7

1.3

mmol/l

—

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

6.38

2.67

5.0

2.6

7.5

6.7

mmol/l

—

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

8.14

2.64

2.8

2.3

103.2

107.6

mmol/l

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

8.14

2.64

1.6

—

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

8.14

2.64

2.8

2.3

—

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

8.14

2.64

2.8

2.3

4.0

3.9

mmol/l

—

(3022145) Colonoscopy Study observation

4.92

2.51

1.7

1.1

—

(3027273) Bicarbonate [Moles/volume] in Venous blood

4.92

2.51

4.6

3.0

28.0

25.6

mmol/l

—

(3004119) Hemoglobin [Mass/volume] in Venous blood

4.38

2.29

4.6

2.7

129.3

136.2

g/l

—

(3024889) Methemoglobin/Hemoglobin.total in Venous blood

4.98

2.26

2.5

2.4

0.7

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

4.98

2.26

2.5

2.4

1.8

0.8

—

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

4.63

2.14

9.2

11.9

9.1

12.3

mmol/l

—

(3025941) Bacteria identified in Stool by Culture

4.70

1.89

1.2

—

(42870588) Differential panel, method unspecified - Blood

2.65

1.88

14.3

6.8

—

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

4.33

1.78

1.0

1.5

—

(3013512) EKG study

2.51

1.73

3.4

4.9

—

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

3.13

1.69

4.4

4.2

—

(3014111) Lactate [Moles/volume] in Serum or Plasma

4.01

1.68

8.2

3.9

1.7

1.3

mmol/l

—

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

3.43

1.66

1.3

1.6

—

(3044640) Blood type and Crossmatch panel - Blood

2.51

1.66

3.6

2.1

—

(3000494) Fungus identified in Specimen by Culture

2.89

1.55

1.6

—

(3007220) Creatine kinase [Enzymatic activity/volume] in Serum or Plasma

2.23

1.32

3.6

1.9

107.5

356.1

u/l

0.58

(3000991) Gas panel - Venous blood

2.91

1.26

6.0

4.2

—

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

2.59

1.25

1.5

1.7

—

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

2.31

1.22

1.5

1.6

—

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

102

2.10

1.20

5.9

4.8

—

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

2.34

1.11

1.6

1.4

—

(3020682) Albumin/Creatinine [Ratio] in Urine

2.03

1.04

3.6

3.8

5.8

7.5

mg/mmol

—

(3041096) Erythrocytes [Presence] in Urine by Automated

2.03

1.04

5.9

4.3

—

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

117

1.93

0.99

7.1

4.3

—

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

2.19

0.98

5.1

2.3

10.3

5.6

e6/l

—

(3018677) aPTT in Platelet poor plasma by Coagulation assay

2.39

0.97

6.7

2.8

27.4

29.6

—

(3037467) Urinalysis macro (dipstick) panel - Urine

195

1.84

0.86

12.8

5.0

—

(3000492) Spirometry study

0.00

0.83

0.0

1.3

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.88

0.75

6.8

5.5

—

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

1.75

0.67

2.3

1.7

—

(3019225) pH of Specimen

1.85

0.66

3.4

6.3

—

(3015736) pH of Urine

100

1.69

0.66

6.6

4.6

—

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

1.71

0.66

3.8

2.1

—

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

0.00

0.62

0.0

1.9

—

(3002582) Erythrocytes [#/volume] in Urine

1.65

0.57

5.4

3.0

80.5

58.4

e6/l

0.11

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

1.61

0.55

4.6

2.9

—

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

1.75

0.54

5.0

2.2

1.3

1.4

e6/l

—

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

1.75

0.54

1.9

1.8

—

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

1.64

0.52

2.5

1.6

20.4

21.6

nmol/l

—

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

0.00

0.42

0.0

1.6

—

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

0.59

0.42

2.4

6.2

1.6

2.7

ug/l

—

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

0.00

0.41

0.0

3.8

—

65.9

—

(36304419) Bacteria [Presence] in Urine

1.53

0.40

5.6

2.6

—

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

1.46

0.40

3.0

1.5

—

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

1.46

0.40

3.0

1.4

—

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

1.35

0.31

3.5

2.6

5.0

e6/l

—

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

283

0.75

0.22

46.4

17.4

109.7

80.0

umol/l

0.56

283

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

1.34

0.22

5.5

3.5

17.2

20.1

ng/l

—

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

1.30

0.22

3.7

3.4

2.6

2.5

mmol/l

—

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

0.00

0.22

0.0

1.6

—

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

0.00

0.22

0.0

1.6

—

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

160

0.78

0.20

2.3

2.7

—

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

1.23

0.18

5.3

2.6

0.3

0.2

e6/l

—

(1761868) Lipid panel - Serum or Plasma

0.75

0.17

4.0

3.0

—

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

1.19

0.10

2.2

1.2

—

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

1.16

0.09

8.0

4.5

—

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

1.14

0.09

2.8

1.6

—

(3009542) Hematocrit [Volume Fraction] of Blood

228

1.19

0.07

44.2

15.1

26.4

39.2

2.07

158

(40768804) Tissue Pathology biopsy report

111

0.86

0.07

3.8

1.8

—

(3044889) 12 lead EKG panel

175

1.06

0.00

5.4

4.0

—

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

0.00

0.0

2.8

—

168.6

—

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

0.00

0.0

1.3

—

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

0.00

0.0

2.2

—

(1002224) Polysomnography panel

0.00

0.0

1.0

—

(44816559) Phosphatidylethanol [Mass/volume] in Blood

0.00

0.0

1.2

—

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

0.00

0.0

1.3

—

(3023323) Follitropin [Units/volume] in Serum or Plasma

0.00

0.0

1.3

—

20.2

—

(4094501)

0.00

0.0

1.5

—

(3023150) Myeloperoxidase 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

1.4

—

38.7

—

(3043109) Cytology report of Tissue fine needle aspirate Cyto stain

0.00

0.0

1.5

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.6

—

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

0.00

0.0

2.2

—

(3043405) Microscopic observation [Identifier] in Specimen by Non-gynecological cytology method

0.00

0.0

1.2

—

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

0.00

0.0

2.4

—

98.9

—

(3010566) Parathyrin.intact [Moles/volume] in Serum or Plasma

0.00

0.0

3.6

—

(3032773) Endomysium IgG Ab [Titer] in Serum

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.2

—

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

0.00

0.0

1.2

—

(3032035) Polymorphonuclear cells/100 leukocytes in Blood

0.00

0.0

2.2

—

59.2

—

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

0.00

0.0

1.2

—

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

0.00

0.0

2.0

—

(40761511) CBC panel - Blood by Automated count

281

0.98

0.00

34.9

14.3

—

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

0.00

0.0

2.0

—

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

0.00

0.0

2.0

—

63.2

—

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

1.02

0.00

5.6

1.9

1.6

2.9

g/l

—

(40758558) Short blood count panel - Blood

0.86

0.00

40.2

8.0

—

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

0.00

0.0

1.0

—

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

1.00

0.00

2.0

1.6

—

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

0.00

0.0

1.7

—

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

0.00

0.0

1.0

—

(3027315) Oxygen [Partial pressure] in Blood

0.00

0.0

3.4

—

10.2

—

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

0.00

0.0

1.4

—

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

0.00

0.0

1.4

—

(3013290) Carbon dioxide [Partial pressure] in Blood

0.00

0.0

3.4

—

4.7

—

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

0.00

0.0

1.6

—

(40768800) Prostate Pathology biopsy report

0.00

0.0

1.2

—

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

0.00

0.0

2.2

—

4.3

—

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

0.00

0.0

2.0

—

Mortality – FinRegistry

↥

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

Relationships between endpoints

↥

Index endpoint: U22_BACTERIAL_AGENTS_RESISTANT_ANTIBI – Bacterial agents resistant to antibiotics

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

Bacterial agents resistant to antibiotics

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 Bacterial agents resistant to antibiotics (U22_BACTERIAL_AGENTS_RESISTANT_ANTIBI)

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