M. Ryan Corces

Aug 16, 2023 | nature.com | Thanaphong Phongpreecha |Neal G Ravindra |Samson Mataraso |Camilo A. Espinosa |Alan Chang |Martin Becker | +5 more

AbstractAssay for Transposase Accessible Chromatin by sequencing (ATAC-seq) accurately depicts the chromatin regulatory state and altered mechanisms guiding gene expression in disease. However, bulk sequencing entangles information from different cell types and obscures cellular heterogeneity. To address this, we developed Cellformer, a deep learning method that deconvolutes bulk ATAC-seq into cell type-specific expression across the whole genome.

Aug 3, 2023 | nature.com | Ginevra Caratu |Orit Rozenblatt-Rosen |Wendy Luo |Christoph Muus |Fabiana M. Duarte |M. Ryan Corces | +19 more

AbstractSingle-cell assay for transposase-accessible chromatin by sequencing (scATAC-seq) has emerged as a powerful tool for dissecting regulatory landscapes and cellular heterogeneity. However, an exploration of systemic biases among scATAC-seq technologies has remained absent.