Leah Rosen

Jul 18, 2024 | genomebiology.biomedcentral.com | Alsu Missarova |Emma Dann |Leah Rosen |Rahul Satija

miloDE is a cluster-free framework for differential expression (DE) testing that leverages a graph representation of scRNA-seq data (Fig. 1). To construct a graph recapitulating distances between cells, we require count matrices and a pre-calculated joint latent embedding across all the replicates from tested conditions (Fig. 1, step 1).

Mar 10, 2023 | biorxiv.org | Alsu Missarova |Leah Rosen |Emma Dann |Rahul Satija

New Results doi: https://doi.org/10.1101/2023.03.08.531744 AbstractComparing molecular features, including the identification of genes with differential expression (DE) between conditions, is a powerful approach for characterising disease-specific phenotypes. When testing for DE in single-cell RNA sequencing data, current pipelines first assign cells into discrete clusters (or cell types), followed by testing for differences within each cluster.