Tools for Healthcare Data Lake Infrastructure Benchmarking

Vast amounts of medical data are generated every day, and constitute a crucial asset to improve therapy outcomes, medical treatments and healthcare costs. Data lakes are a valuable solution for the management and analysis of such a variety and abundance of data, yet to date there is no data lake architecture specifically designed for the healthcare domain. Moreover, benchmarking the underlying infrastructure of data lakes is fundamental for optimizing resource allocation and performance, increasing the potential of this kind of data platforms. This work describes a data lake architecture to ingest, store, process, and analyze heterogeneous medical data. Also, we present a benchmark for infrastructures supporting healthcare data lakes, focusing on a variety of analysis tasks, from relational analysis to machine learning. The benchmark is tested on a virtualized implementation of our data lake architecture, and on two external cloud-based infrastructures. Our results highlight distinctions between infrastructures and tasks of different nature, according to the machine learning techniques, data sizes and formats involved.