applies computational tools ranging from machine learning, algorithm design, and software engineering to the study of genomic data. His recent work focuses on comparative genomics, gene finding, networks of protein interactions, high throughput sequencing and assembly, and population genetics.
, joint with Developmental Biology, studies the gene regulatory landscape of the Human Genome (including but not limited to Ultraconserved Elements) during development. Through a combination of computational and experimental approaches we study (1) the origins and evolution of functional genomic regions, (2) how they encode their different functions, (3) their contribution to human disease, and (4) their role in species adaptation.
is interested in using techniques adapted from logic and digital design for analysis of high-throughput data from multiple sources, and in methods for analyzing the dynamic behavior of Boolean models of biological systems.
works on a variety of algorithmic problems in the computational modeling of physical objects and phenomena. He applies geometric and topological tools to the analysis of the shapes and motions of biological macromolecules (proteins or RNA), as obtained from both experiments and large-scale simulations. He is also interested in structural systems biology and the geometric and physical modeling of soft-tissue structures in the body.
, joint with Electrical Engineering, uses tools from digital systems design, computational photography and VLSI circuits to analyze biological systems. Recent work includes modeling of the Caulobacter cell cycle (w/ McAdams and Shapiro), new micro-fluidic structures (w/ Quake), and light-field microscopy (w/ Levoy).
uses novel machine learning techniques to understand and reconstruct cellular networks and the mechanisms that underlie them. She is particularly interested in understanding how these networks are perturbed by individual genetic variation, environmental stresses, drugs, and pathogens, with the goal of moving towards personalized medicine. She also works on medical imaging, both at the cellular and the organ level, and on integrating clinical and genomic information for improved diagnosis.