covid-einstein-fapesp

Preprocessed data from 2,982 de-identified COVID-19 patients, provided by the Albert Einstein hospital, in Sao Paulo, Brazil.

Data

This COVID-19 dataset was built from originally unlabeled data collected from COVID-19 patients of the Israelite Albert Einstein Hospital, located in Sao Paulo, Brazil. The original database comprises a total of 1,853,695 results from 127 different medical tests, collected from 43,562 de-identified patients, who received treatment in the hospital from January 1, 2020 until June 24, 2020.

For this version, firstly, we identify the patients who tested positive in at least one of the following COVID-19 detection tests:

polymerase chain reaction (PCR),
immunoglobulin M (IgM),
immunoglobulin G (IgG) and
enzyme-linked immunosorbent assay (ELISA).

Next, we filter the patients and left in the dataset only the ones who have made at least one complete blood count (CBC) test, in a date no earlier than the date to be tested positive for COVID-19. In case a patient has made more than one CBC test, we then consider only the results of the first test. Afterwards, we run an algorithm to automatically label each patient of the dataset as presenting or not signs from each type of insufficiency (hepatic, renal and respiratory), strictly according to results from the specific tests listed below, and using their respective reference values provided in the same original database, which are standardized in the medical literature.

After the data cleansing, we end up with a total of 2,982 different patients in the dataset, with each of them presenting a class label regarding whether he or she presented signs of Hepatic Insufficiency, Renal Insufficiency and Respiratory Insufficiency (1 = With Signs, 0 = Without Signs, for each label).

Tests considered for detecting signs of insufficiency in patients

Hepatic:

transaminase TGO (AST)
transaminase TGP (ALT)
alkaline phosphatase
gamma-glutamyl transpeptidase (GGT)

Renal:

creatinine clearance (urine test)
creatinine (blood test)
blood urea nitrogen (BUN)

Respiratory:

arterial blood gas
respiratory pathogen panel
lactate
ionized calcium
potassium

Columns:

id_paciente: patient's unique number
ic_sexo: 0=Female, 1=Male
idade: patient's age
idade_faixa: 0 = age < 20, 1 = 20 <= age < 40, 2 = 40 <= age < 60, 3 = 60 <= age < 80, 4 = age >= 80
Neutrófilos #: neutrophils
CHCM: Mean Corpuscular Hemoglobin Concentration
Eosinófilos #: eosinophils
Hematócrito: hematocrit
Hemoglobina: hemoglobin
Basófilos #: basophils
VCM: Mean corpuscular volume
Neutrófilos: neutrophils (%)
Volume Médio Plaquetário: Average Platelet Volume
Linfócitos: Lymphocytes (%)
Basófilos: basophils (%)
Hemácias: Red Cells
HCM: Medium Corpuscular Hemoglobin
Plaquetas: Platelets
Leucócitos: leukocytes (%)
Monócitos #: monocytes
Monócitos: monocytes (%)
Linfócitos #: Lymphocytes
Eosinófilos: eosinophils (%)
RDW: Red Cell Distribution Width
Leucócitos #: leukocytes
dt_hemo: CBC tests date
respiratoria: presents signs of respiratory insufficiency (0 = No, 1 = Yes)
dt_respiratoria: date when respiratory insufficiency tests were made
hepatica: presents signs of hepatic insufficiency (0 = No, 1 = Yes)
dt_hepatica: date when respiratory insufficiency tests were made
renal: presents signs of renal insufficiency (0 = No, 1 = Yes)
dt_renal: date when renal insufficiency tests were made
all: presents signs of all three types of insufficiency (0 = No, 1 = Yes)
any: presents signs of any type of insufficiency (0 = No, 1 = Yes)

Source

Dados COVID Hospital Israelita Albert Einstein: https://repositoriodatasharingfapesp.uspdigital.usp.br/handle/item/98

Citation

If this material was useful for your research work, please kindly cite the following article:

Colliri, T., Minakawa, M., & Zhao, L. (2021, November). Detecting Early Signs of Insufficiency in COVID-19 Patients from CBC Tests Through a Supervised Learning Approach. In Brazilian Conference on Intelligent Systems (pp. 42-57). Springer, Cham.

https://link.springer.com/chapter/10.1007/978-3-030-91699-2_4