Our Research.

The Uhler Lab develops machine learning foundations and methods for integrating different data modalities and inferring causal relationships from such data in an active fashion. The developed methods and algorithms are applied to discover the regulatory circuits underlying the programs of cells and tissues in health and disease.

Causal Inference

Causal inference is a cornerstone of scientific discovery. We develop theory and methods for identifying optimal interventions and learning causal relationships from data.

Multi-modal Learning

We develop theory and methods for integrating/translating different data modalities and obtaining disentangled representations that elucidate causal relations.

Active Learning & Experimental Design

Given the many possible perturbations in biology (e.g. CRISPR/drugs), we develop robust strategies for iteratively planning, performing, and learning from interventions.

3D Genome Organization and Regulation

The 3D genome organization is intricately linked to gene regulation. We combine sequencing and imaging data with representation learning and causality to elucidate this link.

Cellular Reprogramming

By combining optimal perturbation design (CRISPR/drugs) and causal inference, we seek to develop methods to control cell state transitions in health and disease.

Cells in the Tissue Microenvironment

We integrate rich spatial transcriptomics data to advance our understanding of tissue architecture, cellular dynamics, and disease pathology.

Machine learning model finds genetic factors for heart disease

By analyzing electrocardiograms and magnetic resonance images of the heart, the model can predict heart-related traits and drive genetic discovery.

Allison Whitten

A more effective experimental design for engineering a cell into a new state

By focusing on causal relationships in genome regulation, a new AI method could help scientists identify new immunotherapy techniques or regenerative therapies.

Adam Zewe
Oct 21, 2023

Researchers identify new regulators of cellular aging

During aging, changes in gene expression are tied to alterations in the packing of DNA, a new study shows.

Giorgia Guglielmi
Jan 10, 2024

Research in the Uhler Lab is supported by