647-Monod: Biophysical Modeling of Transcriptional Dynamics

Paper Talk · Mar 16, 2026 · 11m

The paper introduce Monod, a Python-based computational framework designed to analyze single-cell RNA sequencing data through the lens of biophysical models. Unlike standard methods that rely on heuristic normalization and dimensionality reduction, Monod fits stochastic models of transcription to nascent and mature RNA counts to distinguish between biological signal and technical noise. This approach allows researchers to identify transcriptional modulation—such as changes in burst size or frequency—that traditional differential expression analysis might miss. By applying this tool to diverse…