The Berkeley Single Cell Computational Microscopy (BSCCM) Dataset

TL;DR

The BSCCM dataset provides a large collection of microscopy images and measurements of white blood cells, facilitating the development and benchmarking of computational microscopy algorithms with biomedical relevance.

Contribution

This paper introduces the BSCCM dataset, a comprehensive resource of over 12 million images of white blood cells captured with various illumination patterns and fluorescent markers.

Findings

Dataset enables benchmarking of computational microscopy methods.

Includes diverse imaging modalities for robust algorithm development.

Supports biomedical applications with real cell data.

Abstract

Computational microscopy, in which hardware and algorithms of an imaging system are jointly designed, shows promise for making imaging systems that cost less, perform more robustly, and collect new types of information. Often, the performance of computational imaging systems, especially those that incorporate machine learning, is sample-dependent. Thus, standardized datasets are an essential tool for comparing the performance of different approaches. Here, we introduce the Berkeley Single Cell Computational Microscopy (BSCCM) dataset, which contains over ~12,000,000 images of 400,000 of individual white blood cells. The dataset contains images captured with multiple illumination patterns on an LED array microscope and fluorescent measurements of the abundance of surface proteins that mark different cell types. We hope this dataset will provide a valuable resource for the development and testing of new algorithms in computational microscopy and computer vision with practical biomedical applications.