README
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Dataset title: Data for "Epidemiology of invasive pneumococcal disease in Southwest Sweden during the first eleven years after the introduction of general childhood pneumococcal vaccination"

Creators: Tor Härnqvist, Karin Bergman, Erik Backhaus, Mats Dahl, Helena Kolberg, Caroline Ström Turesson, Malin Olander, Staffan Nilsson, Rune Andersson, Susann Skovbjerg, and Johanna Karlsson

Responsible organization:
University of Gothenburg, Sweden

See the Researchdata.se catalogue entry for this dataset for complete metadata, including the dataset description, recommended citation, contact information, and information about how to obtain the dataset. 

Description: This dataset contains pseudonymised data on sex, age, clinical manifestations, and comorbidities for 2,280 individuals with invasive pneumococcal disease (IPD) in Region Västra Götaland during the post-introduction period following the inclusion of pneumococcal vaccination in the childhood immunisation programme in 2009 through 2019. Data were retrieved from patient medical records based on information provided by the microbiological laboratories serving all hospitals in Region Västra Götaland regarding IPD episodes.

Access restrictions: This dataset contains pseudonymized data and is subject to legal protections. This dataset can be requested from the Researchdata.se research data catalog.

Essential information for dataset reuse.
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This dataset contains pseudonymised data on sex, age, clinical manifestations, and comorbidities for 2,280 individuals with invasive pneumococcal disease (IPD) in Region Västra Götaland in 2009 through 2019.


Datafile descriptions
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The dataset "Dataset IPD 2009-2019" contains the variables listed below. 

Variable                  Description                                                            Type/Specification
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NUMMERSERIE               Nummer in key                                                          Number
OMRADEGBG                 Greater Gothenburg or elsewhere in the region                          1 = Greater Guthenburg; 0 = Other parts of the region
EPISOD                    >1 episode                                                             1 = Yes; 0 = No
EPISODNR                  If >1 episode, specifiy ID/number                                      Text
YEAR                      Year                                                                   Number (YYYY)
VARDTID                   Length of stay in hospital                                             Number
POLKLIN                   Hospitalised or treated on an outpatient basis                         1 = Yes; 2 = No; 3 = Data missing
SJHFORV                   Healthcare-related IPD                                                 1 = Yes; 2 = No; 3 = Data missing
ICUCARE                   ICU care                                                               1 = Yes; 2 = No; 3 = Data missing
ICUDAYS                   Days in ICU                                                            Number
PNKVACC                   Vaccinated against pneumococci                                         1 = Yes; 2 = No; 3 = Data missing
PNKVTYP                   Type of pneumococcal vaccine                                           1 = PPV23; 2 = PCV7; 3 = PCV10; 4 = PCV13
SPLEEN                    Spelectomy                                                             1 = Yes; 0 = No
KMMENING                  Clinical manifestation: Meningitis                                     1 = Yes; 0 = No
KMSEPSIS                  Clinical manifestation: Bakteremia without focus                       1 = Yes; 0 = No
KMPNEUM                   Clinical manifestation: Pneumonia                                      1 = Yes; 0 = No
KMOVRIG                   Clinical manifestation: Other manifestation                            1 = Yes; 0 = No
KMOVRVAD                  Typy of other manifestation                                            Text
CULBLOD                   Pneumococci detected in blood cultures                                 1 = Yes; 2 = No; 3 = Data missing
CULLIKV                   Pneumococci detected in CSF                                            1 = Yes; 2 = No; 3 = Data missing
CULOVRIG                  Pneumococci detected in other culture                                  1 = Yes; 0 = No
SEKVELE                   Sequelae after IPD                                                     1 = Yes; 2 = No; 3 = Data missing
KOMPL                     Complication, any                                                      1 = Yes; 2 = No; 3 = Data missing
KOMPLEMPYEM               Complication: Empyema                                                  1 = Yes; 2 = No; 3 = Data missing
KOMPLPLEURAV              Complication: Pleural effussion                                        1 = Yes; 2 = No; 3 = Data missing
KOMPLHJARTINF             Complication: Myocardial infarction                                    1 = Yes; 2 = No; 3 = Data missing
KOMPLOVR                  Complication: Other complication                                       1 = Yes; 2 = No; 3 = Data missing
AVL30D                    Died with in 30 days                                                   1 = Yes; 2 = No; 3 = Data missing
PFSMOKE                   Smoking                                                                1 = Yes; 0 = No; 9 = Data missing; 4 = Former smoker
PFSA                      Substance abuse, any                                                   1 = Yes; 0 = No
PFALKOHOL                 Substance abuse: Alcohol                                               1 = Yes; 2 = No; 3 = Data missing
PFNARKOTIKA               Substance abuse: Other substance abuse                                 1 = Yes; 2 = No; 3 = Data missing
PFAUTOIM                  Autoimmune disease                                                     1 = Yes; 0 = No
PFMALIGN                  Malignancy                                                             1 = Yes; 0 = No
PFHKSJD                   Cardiovacular disease                                                  1 = Yes; 0 = No
PFLIVER                   Liver disease                                                          1 = Yes; 0 = No
PFREN                     Renal disease                                                          1 = Yes; 0 = No
PFRENDIAL                 Dialysis                                                               1 = Haemodialysis; 2 = Peritoneal dialysis; 0 = No dialysis
PFLUNG                    Pulmonary disease                                                      1 = Yes; 0 = No
PFLUNGASTMA               Pulmonary disease: Asthma                                              1 = Yes; 0 = No
PFLUNGKOL                 Pulmonary disease: Chronic obstructive pulmonary disease               1 = Yes; 0 = No
PFDM                      Diabetes Mellitus                                                      1 = Yes; 0 = No
PFOVRIG                   Other predisposing factor                                              1 = Yes; 0 = No
DIAGNOSODL                Diagnosis through conventional culture                                 1 = Yes; 0 = No
MOLECULAR                 Diagnosis through molecular analysis                                   1 = Yes; 0 = No
AGE                       Age                                                                    Number
SEX                       Sex                                                                    1 = Male; 0 = Female
STRATUM                   Age group                                                              1 = 0-1 y; 2 = 2-17 y; 3 = 18-50 y; 4 = 51-64 y; 5 = ≥65e


Reference information
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Data Quality: Blank cells represent missing data. 


