A Scalable MNase-seq Framework for Reproducible Nucleosome Profiling across Pluripotent Stem Cell and Cardiomyocyte Models

Authors:
Publisher website
Google Scholar
Abstract
Highlights: • Systematic MNase optimization across buffer, DNA purification, and cell input variables • Unified workflow validated in hiPSCs, hiPSC-CMs, embryonic, and adult mouse cardiomyocytes, and 6 mammalian cell lines • Fixed-cell protocol enables weeks of storage without loss of DNA quality • Cost-effective yeast spike-in ensures quantitative normalization for MNase-seq • Genome-wide analyses in hiPSCs confirm robust and precise nucleosome positioning at regulatory elements
Funding Information
  • National Health and Medical Research Council (Investigator Grant L3 GNT2008743)
  • National Health and Medical Research Council (Senior Principal Research Fellowship GNT1118576)
  • Australian Research Council (DP210102134)
  • National Health and Medical Research Council (Investigator Grant EL1 Grantor Reference ID 2033823)
  • Medical Research Future Fund (Stem Cell Therapies Mission 2024/MRF2032746)
  • Medical Advances Without Animals Trust (Medical Advances Without Animals Trust (MAWA) and Rozzoli Family Fund (RFF) Research Grant)
  • National Heart Foundation of Australia (2024 NSW Cardiovascular Research Network (CVRN) and Victor Chang Cardiac Research Institute (VCCRI) Innovation Grant)
  • New South Wales Government (NSW Health Cardiovascular Research Capacity Program (2026 to 2029) and Cardiovascular Early- to Mid-Career Researcher Grant)

This publication has 68 references indexed in Scilit: