Lung Abscess: Solitary or multiple collections of PUS within the lung parenchyma as a result of infection by bacteria, protozoa, or other agents.
Endpoint definition
↥
Endpoint definition steps |
FinnGen |
|---|---|
Phenotype data |
520210 |
1. Apply sex-specific ruleNone |
520210 |
2. Check conditionsNone |
520210 |
3. Check pre-conditions, main-only, mode, registry filtersRegistry filters:
2 out of 7 registries used, show all original rules. |
532 |
4. Check minimum number of eventsNone |
532 |
5. Include endpointsNone |
532 |
6. Filter based on genotype QC (FinnGen only) |
532 |
Control definitions (FinnGen only)
- Control exclude
- J10_NECROTIC
Extra metadata
- Level in the ICD hierarchy
- 3
- First used in FinnGen datafreeze
- DF2
Similar endpoints
↥List of similar endpoints to
Abscess of lung
based on the number of shared cases.
Similar with more cases:
- Suppurative and necrotic conditions of lower respiratory tract
- Diseases of the respiratory system
- Any event in hilmo or specialist outpatient
Similar with less cases:
None
Case counts by codes
↥
Summary Statistics
↥-FinRegistry-
Key figures
| All | Female | Male | |
|---|---|---|---|
| Number of individuals | |||
| Whole population | 5076 | 1557 | 3417 |
| Only index persons | 3512 | 1180 | 2332 |
| Unadjusted period prevalence (%) | |||
| Whole population | 0.08 | 0.04 | 0.10 |
| Only index persons | 0.07 | 0.04 | 0.09 |
| Median age at first event (years) | |||
| Whole population | 60.33 | 62.79 | 59.15 |
| Only index persons | 58.66 | 60.67 | 57.65 |
-FinnGen-
Key figures
| All | Female | Male | |
|---|---|---|---|
| Number of individuals | 532 | 158 | 374 |
| Unadjusted period prevalence (%) | 0.13 | 0.05 | 0.16 |
| Median age at first event (years) | 60.59 | 57.66 | 61.82 |
-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)
↥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
- 472
- Matched controls
- 4718
Code
Vocabulary
Description
Odds Ratio
-log10(p)
N matched cases
N matched controls
J85.1
ICD-10 Finland
Abscess of lung with pneumonia
+∞
280.0
240
*
J85.2
ICD-10 Finland
Abscess of lung without pneumonia
+∞
237.1
207
*
J18.9
ICD-10 Finland
Pneumonia, unspecified
8.4
97.4
299
802
J86.9
ICD-10 Finland
Pyothorax without fistula
+∞
85.0
79
*
GD1BD
NOMESCO Finland
Thorax extensive CT-examination
16.1
81.9
140
120
UGC12
NOMESCO Finland
Flexible bronchoscopy
10.5
70.8
152
205
R91
ICD-10 Finland
Abnormal findings on diagnostic imaging of lung
7.5
56.7
151
278
J01MA14
ATC
moxifloxacin; systemic
8.0
55.4
139
233
J01FF01
ATC
clindamycin; systemic
4.6
49.2
232
820
J15.9
ICD-10 Finland
Bacterial pneumonia, unspecified
6.7
46.2
132
260
GD1UA
NOMESCO Finland
Thorax X-ray examination outside radiological department
4.5
35.6
151
451
GD1AA
NOMESCO Finland
Thorax X-ray examination
3.4
34.8
281
1429
GD1AD
NOMESCO Finland
Thorax CT examination
9.2
34.4
75
95
J01MA12
ATC
levofloxacin; systemic
4.0
33.4
166
569
51399
ICD-8 Finland
Abscess of lung
+∞
28.4
27
*
GD1PA
NOMESCO Finland
X-ray examination of the lungs in one projection
5.1
27.4
94
220
GA1AE
NOMESCO Finland
Ultrasound examination of thorax
13.3
26.1
46
38
JN4BD
NOMESCO Finland
Extensive body CT
4.4
24.4
97
262
5130A
ICD-9 Finland
Abscess of lung and mediastinum, Abscess of lung
+∞
24.2
23
*
J44.8
ICD-10 Finland
Other specified chronic obstructive pulmonary disease
3.8
22.4
107
340
TGC00
NOMESCO Finland
Bronchial lavation
9.0
20.7
44
53
GA4YT
NOMESCO Finland
Puncture of pleura with ultrasound guidance
10.0
19.0
38
41
Z2446
NOMESCO Finland
Social worker
5.0
18.5
62
139
GD1QA
NOMESCO Finland
Supine thorax X-ray examination
3.1
18.1
115
446
ZXD05
NOMESCO Finland
Urgent procedure
2.5
17.9
183
949
R03BB04
ATC
tiotropium bromide; inhalant
3.5
17.9
93
313
GAA10
NOMESCO Finland
Intercostal insertion of pleural drainage tube
8.9
17.8
38
46
GD5BD
NOMESCO Finland
Thorax and upper abdomen combined extensive CT examination of
8.8
16.8
36
44
N02AA05
ATC
oxycodone; systemic
3.0
16.8
108
421
J90
ICD-10 Finland
Pleural effusion, not elsewhere classified
6.4
16.5
44
75
J86.00
ICD-10 Finland
Empyema with broncho-pleural fistula
+∞
14.7
14
*
GDC00
NOMESCO Finland
Lobectomy of lung
17.7
14.4
22
13
GD1CT
NOMESCO Finland
Biopsy of the lung with CT guidance
14.0
14.4
24
18
A49.9
ICD-10 Finland
Bacterial infection, unspecified
3.0
14.1
87
327
F10.1
ICD-10 Finland
Mental and behavioural disorders due to use of alcohol, Harmful use
3.9
14.1
59
165
EBA15
NOMESCO Finland
Extraction of large number of teeth
5.7
13.8
40
76
TPH04
NOMESCO Finland
Cathetrisation of vein
2.5
13.7
124
587
GAC46
NOMESCO Finland
Partial decortication of pleura
77.4
13.7
15
*
B44.1
ICD-10 Finland
Other pulmonary aspergillosis
+∞
13.6
13
*
H02AB06
ATC
prednisolone; systemic
2.1
13.5
239
1544
ZXE03
NOMESCO Finland
Procedure duration 20 to 29 minutes
4.3
13.4
51
130
Z3226
NOMESCO Finland
Physiotherapist
2.6
13.4
112
505
D38.1
ICD-10 Finland
Neoplasm of uncertain or unknown behaviour: Trachea, bronchus and lung
6.5
13.1
34
56
GA4AT
NOMESCO Finland
Cathetrisation of pleural cavity with ultrasound guidance
17.3
13.1
20
12
203
Kela drug reimbursment
Chronic asthma and similar chronic obstructive pulmonary diseases
2.5
13.1
116
543
WX302
NOMESCO Finland
Thoracal epidural anesthesy
5.0
13.0
42
91
R4110
NOMESCO Finland
Physiotherapy
2.3
12.7
145
768
130
Kela drug reimbursment
Malignant tumour
3.3
12.3
64
213
WX892
NOMESCO Finland
Monitored bed care
3.5
12.2
59
186
R03AK06
ATC
salmeterol and fluticasone; inhalant
2.7
12.2
88
365
WX408
NOMESCO Finland
General anesthesy, balanced
2.2
11.9
148
811
JN3AE
NOMESCO Finland
Abdominal ultrasound examination
2.9
11.9
78
303
WX404
NOMESCO Finland
Intravenous generell anesthesy
2.5
11.7
106
498
ZXE05
NOMESCO Finland
Procedure duration 40 to 49 minutes
4.5
11.7
41
97
J45.9
ICD-10 Finland
Asthma, unspecified
2.6
11.7
96
429
J02AC03
ATC
voriconazole; systemic
122.9
11.5
12
*
N03AX16
ATC
pregabalin; oral
2.3
11.3
122
625
TPH15
NOMESCO Finland
Insertion of central venous catheter through external or internal jugular vein
3.5
11.1
52
160
ZXE20
NOMESCO Finland
More than three and less than five hours
2.6
11.0
89
392
N05AH04
ATC
quetiapine; oral
2.5
11.0
92
414
J44.0
ICD-10 Finland
Chronic obstructive pulmonary disease with acute lower respiratory infection
4.0
10.9
44
119
R50.9
ICD-10 Finland
Fever, unspecified
2.6
10.7
82
351
ZXE00
NOMESCO Finland
One hour or less
2.0
10.5
186
1169
A03FA01
ATC
metoclopramide; systemic, rectal
2.3
10.3
102
499
ZXE04
NOMESCO Finland
Procedure duration 30 to 39 minutes
3.6
10.3
46
136
GD1DD
NOMESCO Finland
High resolution CT examination of lungs
3.9
10.2
41
111
N05BA01
ATC
diazepam; systemic, rectal
2.6
10.1
79
341
J20.9
ICD-10 Finland
Acute bronchitis, unspecified
2.4
10.0
95
453
R04.2
ICD-10 Finland
Haemoptysis
4.3
10.0
36
88
N02AX02
ATC
tramadol; systemic, rectal
1.9
10.0
216
1454
R03DA04
ATC
theophylline; systemic, rectal
3.4
9.9
48
152
A41.9
ICD-10 Finland
Sepsis, unspecified
4.4
9.9
35
84
Z51.5
ICD-10 Finland
Palliative care
3.6
9.9
44
130
ZXE10
NOMESCO Finland
More than one and less than three hours
1.9
9.8
178
1121
F10.25
ICD-10 Finland
Alcohol dependence continuous use
7.4
9.6
22
31
ZXE02
NOMESCO Finland
Procedure duration 10 to 19 minutes
3.9
9.6
39
107
R03AC02
ATC
salbutamol; inhalant
1.9
9.6
235
1646
R06.0
ICD-10 Finland
Dyspnoea
2.1
9.5
121
660
F10.39
ICD-10 Finland
Withdrawal symptoms caused by alcohol UNS
8.3
9.4
20
25
R81
ICPC
Pneumonia
5.2
9.4
28
56
N05AH03
ATC
olanzapine; systemic
3.6
9.3
42
126
Z2221
NOMESCO Finland
Medical doctor
2.0
9.2
135
781
J01CR02
ATC
amoxicillin and beta-lactamase inhibitor; systemic
1.8
9.1
229
1604
J47
ICD-10 Finland
Bronchiectasis
8.2
8.9
19
24
TGA30
NOMESCO Finland
Thoracocentesis
14.4
8.7
14
10
WX730
NOMESCO Finland
Conventional respirator
6.4
8.7
22
36
TPH07
NOMESCO Finland
Cathetrisation of artery
2.6
8.7
65
275
Z3231
NOMESCO Finland
Registered nurse
2.0
8.6
138
820
R03AK03
ATC
[D] fenoterol & other drugs for obstructive airway dis; inhalant
3.0
8.6
49
174
XF400
NOMESCO Finland
ECG with 12 standard connections
2.2
8.4
99
518
GAC96
NOMESCO Finland
Other operation on pleura
+∞
8.4
8
*
J44
ICD-10 Finland
Other chronic obstructive pulmonary disease
5.6
8.2
23
43
N03AG01
ATC
valproic acid; systemic, rectal
3.4
8.1
38
118
R56.8
ICD-10 Finland
Other and unspecified convulsions
3.4
8.1
38
118
GAC97
NOMESCO Finland
Other endoscopic operation on pleura
34.0
8.1
10
*
F10.21
ICD-10 Finland
Alcohol dependence currently abstinent, but staying in restrictive environment
7.2
7.8
18
26
DM1QA
NOMESCO Finland
Paranasal sinuses X-ray examination in one projection
3.8
7.8
32
89
N06AX11
ATC
mirtazapine; oral
1.9
7.8
141
874
AA1BD
NOMESCO Finland
Extensive CT of head and brain
4.9
7.7
24
51
P01AB01
ATC
metronidazole; oral, rectal
1.8
7.7
162
1052
FB1BD
NOMESCO Finland
Extensive CT examination of arteria pulmonalis
2.8
7.6
49
189
JN1AE
NOMESCO Finland
Ultrasound examination of upper part of abdomen
2.8
7.6
49
189
JN4CD
NOMESCO Finland
Very extensive body CT
3.8
7.6
31
86
J43.9
ICD-10 Finland
Emphysema, unspecified
5.6
7.6
21
39
A02BC02
ATC
pantoprazole; systemic
1.7
7.6
288
2241
GD5AD
NOMESCO Finland
Thorax and upper abdomen combined CT examination of
9.1
7.6
15
17
J13
ICD-10 Finland
Pneumonia due to Streptococcus pneumoniae
10.3
7.6
14
14
N07BB01
ATC
disulfiram; oral
3.2
7.6
38
125
J01FA06
ATC
roxithromycin; oral
1.8
7.5
179
1215
N05AH02
ATC
clozapine; systemic
6.1
7.5
19
32
N06AB04
ATC
citalopram; systemic
2.0
7.4
103
577
JN4AD
NOMESCO Finland
Body CT examination
2.7
7.3
48
188
J15.1
ICD-10 Finland
Pneumonia due to Pseudomonas
+∞
7.3
7
*
WX872
NOMESCO Finland
Intensive care
3.1
7.3
38
129
F29
ICD-10 Finland
Unspecified nonorganic psychosis
4.5
7.2
24
55
GDA20
NOMESCO Finland
Excision of lesion of lung
30.5
7.2
9
*
PH2AE
NOMESCO Finland
Ultrasound examination of lower leg veins
2.4
7.1
58
256
F10.29
ICD-10 Finland
Addiction caused by alcohol UNS
4.6
7.1
23
52
J44.9
ICD-10 Finland
Chronic obstructive pulmonary disease, unspecified
3.0
7.0
38
132
112
Kela drug reimbursment
Severe psychotic and other severe mental disorders
2.8
7.0
45
174
F20.00
ICD-10 Finland
Paranoid schizophrenia continuous
4.8
7.0
22
48
N05CF01
ATC
zopiclone; oral
1.8
7.0
153
1004
H02AB07
ATC
prednisone; oral
2.1
6.9
77
395
R03AC12
ATC
salmeterol; inhalant
3.4
6.9
32
100
J93.1
ICD-10 Finland
Other spontaneous pneumothorax
9.5
6.8
13
14
WX700
NOMESCO Finland
Respiratory and circulatory monitoring
2.0
6.8
88
479
A41.5
ICD-10 Finland
Sepsis due to other Gram-negative organisms
4.1
6.8
25
64
F20.30
ICD-10 Finland
Undifferentiated schizophrenia continuous
7.3
6.8
15
21
C03CA01
ATC
furosemide; systemic
1.8
6.7
151
995
X69
ICD-10 Finland
Intentional self-poisoning by and exposure to other and unspecified chemicals and noxious substances
4.7
6.7
21
46
X59
ICD-10 Finland
Exposure to unspecified factor
2.0
6.7
91
507
B01AB05
ATC
enoxaparin; parenteral
1.8
6.6
139
895
GAB10
NOMESCO Finland
Antero- or postero-lateral thoracotomy
12.5
6.6
11
9
WX602
NOMESCO Finland
Repeated or continuing anesthesia shots throug a catheter
2.7
6.5
42
163
T36
ICD-10 Finland
Poisoning by systemic antibiotics
3.7
6.5
27
77
K51.0
ICD-10 Finland
Ulcerative (chronic) pancolitis
14.6
6.4
10
7
A28
ICPC
Limited function/disability NOS
2.0
6.4
80
430
UJD10
NOMESCO Finland
Esophagoscopy, gastroscopy and duodenoscopy
1.8
6.3
134
868
B18.2
ICD-10 Finland
Chronic viral hepatitis C
9.4
6.3
12
13
A41.0
ICD-10 Finland
Sepsis due to Staphylococcus aureus
4.9
6.3
19
40
GAC43
NOMESCO Finland
Total decortication of pleura
+∞
6.3
6
*
GDB20
NOMESCO Finland
Segmental resection of lung
+∞
6.3
6
*
B44.0
ICD-10 Finland
Invasive pulmonary aspergillosis
+∞
6.3
6
*
J18.1
ICD-10 Finland
Lobar pneumonia, unspecified
7.8
6.2
13
17
N05AA02
ATC
levomepromazine; systemic
2.9
6.1
35
126
Mortality – FinRegistry
↥Association
Association between endpoint J10_ABSCLUNGPNEUMO and mortality.
Females
| Parameter | HR [95% CI] | p-value |
|---|---|---|
| J10_ABSCLUNGPNEUMO | 4.25 [3.11, 5.8] | < 0.001 |
| Birth year | 0.992 [0.98, 1.0] | 0.069 |
During the follow-up period (1.1.1998 — 31.12.2019), 385 out of 944 females with J10_ABSCLUNGPNEUMO died.
Males
| Parameter | HR [95% CI] | p-value |
|---|---|---|
| J10_ABSCLUNGPNEUMO | 4.708 [3.8, 5.83] | < 0.001 |
| Birth year | 0.988 [0.98, 1.0] | 0.018 |
During the follow-up period (1.1.1998 — 31.12.2019), 890 out of 2011 males with J10_ABSCLUNGPNEUMO died.
Mortality risk
Mortality risk for people of age
years, who have J10_ABSCLUNGPNEUMO.| N-year risk | Females | Males |
|---|---|---|
| 1 | 0.272% | 1.001% |
| 5 | 1.99% | 5.415% |
| 10 | 5.023% | 14.01% |
| 15 | 10.22% | 24.788% |
| 20 | 16.725% | 38.003% |
Relationships between endpoints
↥Index endpoint: J10_ABSCLUNGPNEUMO – Abscess of lung
GWS hits: -
Endpoint
Case Overlap
Survival Analysis
Genetic Correlations
Genetic Signals
N (Jaccard index)
HR [CI]
Extremity
rg [CI]
Extremity
Hits
Coloc Hits
FinRegistry
FinnGen
FinRegistry
FinnGen
FinnGen
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