CRAK-Velo: chromatin accessibility kinetics integration improves RNA velocity estimation

Genome biology 2026 Open access

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Authors: Nour El Kazwini, Mingze Gao, Idris Kouadri Boudjelthia, Fangxin Cai, Yuanhua Huang, Guido Sanguinetti
DOI: 10.1186/s13059-026-04086-y
Cited by: 1
References: 15

Abstract

RNA velocity has recently emerged as a key tool in the analysis of single-cell transcriptomic data, yet connecting RNA velocity analyses to underlying regulatory processes has proved challenging. Here, we propose CRAK-Velo, a semi-mechanistic model that integrates chromatin accessibility data in the estimation of RNA velocities. CRAK-Velo provides biologically consistent estimates of developmental flows and enables accurate cell-type deconvolution, while additionally shining light on regulatory processes at the level of interactions between genes and chromatin regions.

Fields of Study & Subjects

RNA Research and Splicing RNA and protein synthesis mechanisms RNA modifications and cancer

Publication details

Journal / source
Genome biology
Publisher
Springer Science and Business Media LLC
Volume
27
Issue
1
Publication date
5 May 2026
Language
EN