Systems Biology Group Meeting

  • Speaker
  • Mariano Gabitto, Ph.D.
Date & Time


Topic: Modeling Structure in Single-cell Chromatin Data.

In recent years, single-cell technologies have revolutionized biology, providing exciting opportunities to map cellular populations through development. Among these technologies, single-cell ATAC-seq has become the leading assay for probing the cellular regulatory landscape by mapping chromatin information. How do we discover structure in this high-dimensional data and use it to understand development? Here, I will present a Bayesian state space model to characterize chromatin information by modeling the duration of functional and accessible chromatin regions, termed ChromA. I will introduce hidden semi-Markov models as a biologically plausible assumption to distill regulatory regions from ATAC-seq data sets. Next, I will show how this model can be extended to analyze single-cell ATAC-seq information and to compare different cellular populations. Finally, I will show how ChromA can be used to map the chromatin developmental landscape of Interneurons in the cerebral cortex, revealing the fundamental logic of cortical interneuron specification

Advancing Research in Basic Science and MathematicsSubscribe to Flatiron Institute announcements and other foundation updates