HiCAR (Hi-C on Accessible Regulatory DNA), RNA seq and ATAC seq anaysis of of human iPSCs differentiating into contracting striated muscle cells

We differentiated human iPSCs (the NCRM1 cell line | https://hpscreg.eu/cell-line/CRMi003-A) in vitro into contracting striated muscle cells using the method as reviewed by Yan et al. 2021 (https://doi.org/10.1016/j.semcdb.2021.04.017), see also Chal et al. 2015, 10.1038/nbt.3297; Chal et al. 2016, 10.1038/nprot.2016.110; Al Tanoury et al. 2020, 10.1242/dev.187344; Al Tanoury et al. 2021, 10.1073/pnas.2022960118. We performed parallel HiCAR (Hi-C on Accessible Regulatory DNA, as published by Wei et al. 2022, 10.1016/j.molcel.2022.01.023, and Wei et al. 2023, doi.org/10.1002/cpz1.899), RNA bulk sequencing, and bulk ATAC sequencing analysis at days 08, 12, 20 and at the endpoint of the secondary differentiation (starting at day 22).