Risteys · M13_MIDGRANULOMA

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 — M31.2 Hospital discharge: ICD-9 — 4463 Cause of death: ICD-10 — M31.2 Cause of death: ICD-9 — 4463 2 out of 7 registries used, show all original rules.	19
4. Check minimum number of events None	19
5. Include endpoints None	19
6. Filter based on genotype QC (FinnGen only)	19

Summary Statistics

↥

-FinRegistry-

Key figures

	All	Female	Male
Number of individuals
Whole population	115	68	47
Only index persons	88	53	35
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	-	60.23	61.41
Only index persons	58.21	59.97	55.56

-FinnGen-

Key figures

	All	Female	Male
Number of individuals	19	11	8
Unadjusted period prevalence (%)	0.00	0.00	0.00
Median age at first event (years)	53.62	52.36	55.35

-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

unit

cases

controls

-log₁₀(p)

N cases

N controls

(3026782) Osmolality of Urine

15.23

6.72

9.3

2.4

mosm/kgh2o

596.8

571.0

0.16

(42870588) Differential panel, method unspecified - Blood

9.17

4.79

16.4

3.7

—

(3000067) Parathyrin.intact [Mass/volume] in Serum or Plasma

11.06

4.66

14.6

2.6

ng/l

95.6

69.8

—

(3002582) Erythrocytes [#/volume] in Urine

8.65

4.59

16.1

2.7

e6/l

14.7

1365.0

0.52

(36304419) Bacteria [Presence] in Urine

8.41

4.49

12.7

2.4

—

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

16.53

4.06

14.8

1.0

g/l

1.1

1.2

—

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

16.53

4.06

14.3

1.0

g/l

0.2

0.3

—

(3004789) Transferrin [Mass/volume] in Serum or Plasma

9.70

4.00

9.4

1.5

g/l

2.3

2.2

—

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

7.00

3.94

8.9

2.4

e6/l

2.0

3.1

0.73

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

6.90

3.90

16.5

2.5

e6/l

0.0

0.3

1.54

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

6.47

3.60

18.6

2.7

—

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

7.77

3.51

9.6

1.6

umol/l

11.3

11.6

—

(3026008) Bacteria identified in Urine by Culture

5.44

3.14

5.1

2.5

—

(3000330) Specific gravity of Urine by Test strip

9.09

3.12

10.2

3.6

—

(3007853) Bacteria identified in Skin by Aerobe culture

6.25

2.78

3.1

1.4

—

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

4.87

2.77

5.8

4.3

—

(3022250) Lactate dehydrogenase [Enzymatic activity/volume] in Serum or Plasma by Lactate to pyruvate reaction

9.14

2.72

3.8

5.9

u/l

246.0

272.0

—

(3012544) pH of Venous blood

5.85

2.66

13.4

2.8

—

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

5.85

2.66

13.9

2.8

kpa

5.5

5.7

—

(3042936) Bacteria identified in Isolate by Culture

5.18

2.43

3.4

1.2

—

(3018418) pH of Serum or Plasma

4.39

2.34

25.7

4.3

—

7.4

—

(3009508) Creatinine [Moles/volume] in Urine

4.27

2.31

13.9

2.5

mmol/l

5.4

8.0

2.29

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

4.23

2.31

13.8

2.9

g/l

35.7

36.4

0.27

(3000494) Fungus identified in Specimen by Culture

5.73

2.08

2.6

1.2

—

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

4.19

2.04

5.3

2.6

ng/l

53.1

281.2

—

(3024354) Oxygen [Partial pressure] in Venous blood

4.64

2.02

7.2

2.8

kpa

4.1

4.4

—

(3024889) Methemoglobin/Hemoglobin.total in Venous blood

4.80

1.84

7.8

2.7

0.5

0.7

—

(3010517) Carboxyhemoglobin/Hemoglobin.total in Venous blood

4.80

1.84

7.8

2.7

1.1

1.7

—

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

4.44

1.73

8.0

2.9

g/l

114.2

129.8

—

(3000991) Gas panel - Venous blood

4.44

1.73

27.2

11.3

—

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

3.49

1.72

3.9

2.0

mmol/l

0.8

—

(40758558) Short blood count panel - Blood

3.15

1.64

20.7

8.8

—

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

3.18

1.54

1.4

1.6

mmol/l

1.2

1.4

—

(3023368) Bacteria identified in Blood by Culture

2.99

1.44

10.9

5.2

—

(3044640) Blood type and Crossmatch panel - Blood

2.78

1.43

4.5

2.0

—

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

2.80

1.37

5.0

2.1

—

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

2.76

1.36

10.2

3.5

—

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

0.00

1.08

0.0

1.6

—

(3041096) Erythrocytes [Presence] in Urine by Automated

2.33

1.01

12.6

2.5

—

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

2.19

0.88

3.2

1.5

nmol/l

20.5

21.2

—

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

2.08

0.76

2.9

1.7

u/l

107.3

167.7

—

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

1.90

0.66

5.7

3.7

—

(3044889) 12 lead EKG panel

110

2.03

0.65

3.4

4.2

—

(42868674) Cholesterol in HDL/Cholesterol.total [Molar ratio] in Serum or Plasma

0.00

0.64

0.0

3.9

—

32.3

—

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

0.00

0.64

0.0

1.8

—

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

0.00

0.64

0.0

14.9

—

(40760892) CBC W Ordered Manual Differential panel - Blood

1.90

0.63

17.0

6.8

—

(3022145) Colonoscopy Study observation

0.00

0.62

0.0

1.2

—

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

107

0.57

0.48

3.9

3.5

—

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

0.00

0.43

0.0

1.4

—

(40761535) Cells panel - Urine sediment

0.00

0.43

0.0

3.2

—

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

1.48

0.38

1.2

1.6

—

(3013139) Helicobacter pylori Ag [Presence] in Stool

0.00

0.22

0.0

1.2

—

(3017446) Testosterone [Moles/volume] in Serum or Plasma

0.00

0.22

0.0

2.6

—

16.4

—

(3019225) pH of Specimen

0.00

0.22

0.0

4.2

—

(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

—

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

106

0.71

0.20

2.9

2.7

u/l

66.6

32.9

—

101

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

1.22

0.10

2.8

2.5

u/l

381.3

51.0

—

(3016888) Borrelia burgdorferi IgG Ab [Units/volume] in Serum

0.00

0.0

1.4

—

(3039443) Prostate specific Ag panel - Serum or Plasma

0.00

0.0

1.3

—

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

0.00

0.0

1.7

—

16.5

—

(3008898) HLA-B27 [Presence]

0.00

0.0

1.0

—

(40768793) Breast Pathology biopsy report

0.00

0.0

1.4

—

(1002224) Polysomnography panel

0.00

0.0

1.3

—

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

0.00

0.0

1.0

—

(3006093) Chlamydia trachomatis DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.2

—

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

0.00

0.0

2.2

—

29.0

—

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

0.00

0.0

2.8

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.2

—

(40768804) Tissue Pathology biopsy report

0.87

0.00

2.5

1.8

—

(3034770) Mitochondria Ab [Titer] in Serum

0.00

0.0

1.2

—

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

0.00

0.0

1.0

—

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

0.00

0.0

1.3

—

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

0.97

0.00

4.2

3.9

ug/l

0.5

1.8

—

(3011371) Neisseria gonorrhoeae DNA [Presence] in Specimen by NAA with probe detection

0.00

0.0

2.2

—

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

0.00

0.0

1.4

—

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

0.00

0.0

2.6

—

(3050380) Cytology report of Cervical or vaginal smear or scraping Cyto stain

0.00

0.0

1.2

—

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

0.00

0.0

2.8

—

183.2

—

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

0.00

0.0

1.0

—

(4034850)

0.00

0.0

40.3

—

Mortality – FinRegistry

↥

Association

Association between endpoint M13_MIDGRANULOMA and mortality.

Females

No data

Males

No data

Mortality risk

Mortality risk for people of age

years, who have M13_MIDGRANULOMA.

N-year risk	Females	Males
1	No data	No data
5	No data	No data
10	No data	No data
15	No data	No data
20	No data	No data

Relationships between endpoints

↥

Index endpoint: M13_MIDGRANULOMA – Lethal midline granuloma

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	M13_MIDGRANULOMA
CONTROL_EXCLUDE	M13_SYSTCONNECT
CONTROL_PRECONDITIONS
CONTROL_CONDITIONS
SEX
INCLUDE
PRE_CONDITIONS
CONDITIONS
OUTPAT_ICD
OUTPAT_OPER
HD_MAINONLY
HD_ICD_10_ATC
HD_ICD_10	M312
HD_ICD_9	4463
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	M312
COD_ICD_9	4463
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

Lethal midline granuloma

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