What's bound to a transcription factor
We map the protein complexes built around transcription factors, directly in cells and tumor tissue, using RIME.
Genetics, genomics, and the epigenetic code of the cell
Our mission: to understand the fundamentals of epigenetic and transcriptional regulation in cellular dynamics, for early detection and treatment.
Approach
Three areas of focus
How epigenetic state varies, cell by cell
scNMT-seq profiles chromatin accessibility, DNA methylation, and transcription together, in the same single cell.
Mohammed*, Argelaguet* et al., Nature 2019 · Cell Reports 2017
How hormones rewire the cancer cell
We study how estrogen and progesterone signaling reprograms transcription factors and drives tumor progression.
What we're working on now
A look at active projects and the data behind them. Some pieces are interactive: hover and click to explore. Updated as the work develops.
Tools we've built
Methods developed by the lab and its members, openly available to the research community.
Single-cell nucleosome, methylation and transcription sequencing
A single-cell method for parallel transcriptome, chromatin accessibility, and DNA methylation profiling: three layers of regulation from one cell.
Read the methodRapid immunoprecipitation mass spectrometry of endogenous proteins
Allows the study of protein complexes (in particular chromatin and transcription factor complexes) in a rapid and robust manner by mass spectrometry.
Read the methodTopic inference of transcriptionally associated networks
A topic-modeling-based machine learning approach to identify transcriptional cell states in single-cell RNA-seq datasets.
Read the methodDig into the details.
Every method and finding above is documented in our publication record; explore the full list.