Code for cardio scRNA-seq analysis and figure plots from manuscript A comprehensive analysis of gene expression changes in a high replicate and open-source dataset of differentiating hiPSC-derived cardiomyocytes.
Overview: Manuscript data set contains single cell RNA-sequencing data from in vitro hiPSC derived cardiomyocytes and includes both raw (fastq) and processed data (count matrix).
hiPSCs were differentiated into cardiomyocytes using two protocols: small molecule (Lian et al. 2012) and cytokine (Palpant et al. 2015). Samples were collected for sequencing at 4 time points: 1) D0 time point before the initiation of differentiation, 2) D12/D14 after differentiation was initiated, 3) D24/D26, and 4) D90.
Single cell libraries were prepared using the Split-Seq method. (see manuscript for more details)