Project description:We performed RNA sequencing analyses of human iPSC and iPSC-derived skeletal muscle organoids in different differentiation stages of 4wk, 8wk, and 16wk.
Project description:We performed single cell RNA sequencing analysis of human iPSC-derived skeletal muscle organoids at 12 week post differentiation stage.
Project description:To begin to validate potential causal regulators of muscle function, we targeted genes containing novel skeletal muscle pQTLs and molecular/phenotypic associations, and performed a functional genomic screen in human skeletal muscle organoids (PMID: 30527761). We focused on proteins with negative associations to lean mass, grip strength or other metabolic associations, and generated a total of 27 individual rAAV6:shRNAs. Organoids were grown around contraction posts to monitor contractile force production during electrical stimulation, and transduced following differentiation and maturation to limit effects on the myogenic program (Figure 3A). Electrical stimulation was performed to induce either a tetanic contraction for assessment of maximum force production or stimulated with sustained lower frequency for assessment of fatigue. Following the protocol, organoids were analysed by proteomics which quantified 17/27 targets with 13 targets significantly reduced in abundance by rAAV6:shRNA.
Project description:Skeletal muscle accounts for the largest proportion of human body mass, on average, and is a key tissue in complex diseases and mobility. It is composed of several different cell and muscle fiber types. Here, we optimize single-nucleus ATAC-seq (snATAC-seq) to map skeletal muscle cell-specific chromatin accessibility landscapes in frozen human and rat samples, and single-nucleus RNA-seq (snRNA-seq) to map cell-specific transcriptomes in human. We additionally perform multi-omics profiling (gene expression and chromatin accessibility) on human and rat muscle samples.
Project description:The amount of RNA sequencing data on skeletal muscle is very limited. We have analyzed a large set of human muscle biopsy samples and provide extensive information on the baseline skeletal muscle transcriptome, including completely novel protein-coding transcripts. Analyze of transcriptome in 24 skeletal muscle biopsy samples, 12 individuals and one biopsy per leg per individual. This experiment is linked to E-GEOD-58387.