Carpenter–Singh Lab

The Carpenter–Singh Lab is part of the Imaging Platform based at the Broad Institute of MIT and Harvard in Cambridge, Massachusetts, USA. It is led by Anne Carpenter and Shantanu Singh. Our research group develops advanced methods and software tools to quantify and mine the rich information present in cellular images to yield biological discoveries.

We are passionate about developing computational techniques that accelerate the discovery of new medicines, and we work across all disease areas, from cancer and psychiatric disease to rare disorders and infectious disease.

A major focus is profiling: we are using advanced machine learning methods, including deep learning, to identify morphological patterns in cell populations, to probe the causes and cures for disease.

The wider scientific computing community has recognized us for our major contributions to popular open source applications and libraries, including ImageJ, TensorFlow, scikit-image, and scikit-learn.

The main research theme is quantifying and mining the rich information present in cellular images to yield biological discoveries, often using deep learning. We work on high-throughput projects (100,000-1,000,000 images) probing a variety of biological processes and diseases of interest, with a special interest in psychiatric research, infectious disease, and cancer.