Antiretroviral Therapy in HIV
This dataset comprises viral loads, CD4 counts, and drug regimen information for 8,916 patients with HIV.
What you should know about this dataset
These synthetic data were generated based on the EuResist Integrated Database. The cohort was defined to mimic the dataset used in Parbhoo, S., Bogojeska, J., Zazzi, M., Roth, V. & Doshi-Velez, F. Combining Kernel and Model Based Learning for HIV Therapy Selection. American Medical Informatics Association Summits on … Continue reading, but modified to incorporate a published WHO guideline World Health Organisation. Consolidated Guidelines on the Use of Antiretroviral Drugs for Treating and Preventing HIV Infection: Recommendations for a Public Health Approach (2016). for the standardisation of antiretroviral drug use. All synthetic records have a length of 60 months.
The following tables contain a list of variables in the synthetic data together with descriptive statistics.
|wdt_ID||Variable name||Data Type||Unit||Numeric Statistics|
|1||Viral Load (VL)||numeric||copies/mL||Median: 54.77 (Q1: 16.51, Q3: 209.03)|
|2||Absolute Count for CD4 (CD4)||numeric||cells/mm3||Median: 465.81 (Q1: 279.26, Q3: 840.34)|
|3||Relative Count for CD4 (Rel CD4)||numeric||cells/mm3||Median: 25.57 (Q1: 18.20, Q3: 35.72)|
|4||Gender||binary||-||Male: 93.42%, Female: 6.58%|
|5||Ethnic||categorical||-||4 Classes Asian: 0.47%; Afro: 2.55%; Caucasian: 26.81%; Other: 70.17%|
|6||Base Drug Combination||categorical||-||6 Classes FTC + TDF: 73.66%; 3TC + ABC: 14.08%; FTC + TAF: 0.98%; DRV + FTC + TDF: 5.50%; FTC + RTVB + TDF: 2.30%; Other: 3.47%|
|7||Complementary INI||categorical||-||4 Classes DTG: 11.96%; RAL: 0.49%; EVG: 4.69%; Not Applied: 82.86%|
|8||Complementary NNRTI||categorical||-||4 Classes NVP: 0.19%; EFV: 9.27%; RPV: 43.76%; Not Applied: 46.78%|
|9||Extra PI||categorical||-||6 Classes DRV: 0.69%; RTVB: 4.02%; LPV: 1.08%; RTV: 2.02%; ATV: 4.26%; Not Applied: 87.92%|
|10||Extra pk Enhancer (Extra pk-En)||binary||-||False: 96.70%, True: 3.30%|
|11||VL Measured (VL (M))||binary||-||False: 79.35%, True: 20.65%|
|12||CD4 (M)||binary||-||False: 83.39%, True: 16.61%|
|13||Drug Recorded (Drug (M))||binary||-||False: 15.56%, True: 84.44%|
Comparison of marginal distributions
Comparison of marginal distributions between the real and synthetic data for continuous, categorical and binary variables.
Numeric variable comparisons
VL, CD4, and Rel CD4
Categorical variable comparisons
Ethnicity and Components of the Drug Regimen
Binary variable comparisons
Gender, use of pk Enhancer, and the measurement (M) variables
Comparison of correlations
The matrices below show:
1) Static correlations between pairs of variables for all patients at any time, in the real and synthetic data.
2) Dynamic correlations between variables in the real and synthetic data. Time series for each patient were linearly decomposed into trends (indicating a general upward or downward slope) and cycles (indicating periodic patterns). Correlations were then computed between trends and cycles for all patients.
Health Gym data can be downloaded either directly from this website or using the Python API.
Install the health gym python package through pip by running the following in your terminal.
pip install healthgym
To download and access the data from within python.
import healthgym as hg hypotension_data = hg.datasets.HIV(root: 'path/to/data/', download = True)
All datasets support the following parameters.
root (string) # Root directory of dataset where dataset exists or will be saved to if download is set to True. download (bool, optional) # If true, downloads the dataset from the internet and puts it in root directory. If dataset is already downloaded, it is not downloaded again.
Download the dataset
Direct download as CSV file or view GitHub repository
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Join our community on github.
|1||Parbhoo, S., Bogojeska, J., Zazzi, M., Roth, V. & Doshi-Velez, F. Combining Kernel and Model Based Learning for HIV Therapy Selection. American Medical Informatics Association Summits on Translational Science Proceedings (2017).|
|2||World Health Organisation. Consolidated Guidelines on the Use of Antiretroviral Drugs for Treating and Preventing HIV Infection: Recommendations for a Public Health Approach (2016).|