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Transcriptional profiling of nutrient-balanced early trilineage differentiations derived from H9 hPSCs.

ABSTRACT: Transcriptional profiling of nutrient-balanced early trilineage differentiations derived from H9 hPSCs.

PROVIDER: PRJNA524638 | ENA |

REPOSITORIES: ENA

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Transcriptional profiling of nutrient-balanced early trilineage differentiations derived from H9 hPSCs.

Project description:Here, we show unexpected and crucial metabolic nodes through TCA flux and glutaminolysis that modulate germ layer specification. Previous reports have shown that sustained glycolytic flux though MYC regulation is required for ectoderm specification. Our data support the finding that the germ layers have distinct metabolic profiles, but through investigation into the role of OXPHOS in germ layer specification.

2019-12-19 | GSE127270 | GEO

Mapping human pluripotent stem cell differentiation pathways via high throughput single-cell RNA-sequencing

Project description:Human pluripotent stem cells (hPSCs) provide both powerful models for studying cellular differentiations, and unlimited sources of cells for regenerative medicine. However, a comprehensive single cell level differentiation roadmap for hPSCs has not been achieved yet. Here, we used high throughput single-cell RNA-sequencing (scRNA-seq) method, based on optimized microfluidic circuits, to profile early differentiation lineages in the human embryoid body (EB) system. We presented a cellular landscape for hPSC early differentiations covering different cellular lineages, including neural cell, muscle cell, endothelial cell, stromal cell, liver cell, and epithelial cell. Through pseudotemporal analysis, we constructed the differentiation trajectories of these progenitor cells and revealed the gene expression dynamics in the process of differentiation. We reset Primed H9 into Naïve-like H9 and studied cell state transition process via scRNA-seq. We found that mesendoderm genes are enriched in Naïve-like H9. Functionally, Naïve-like H9 showed better potency for differentiation into the hematopoietic lineages. We constructed the differentiation landscape of hPSC early differentiation by scRNA-seq analysis. We offer new insights into molecular pathways of early embryonic lineages that can be harnessed for optimization of differentiation protocols. (Pipeline for C1 data demultiplex : https://github.com/bioeauty/sccpipe)

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Project description:Roseobacter sp. H9 strain:H9 Genome sequencing and assembly

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Pseudomonas sp. H9 strain:H9

Project description:Pseudomonas sp. H9 strain:H9 Genome sequencing and assembly

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Campylobacter coli H9 strain:H9

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Comparison of hPSCs-derived cholangiocyte-like cells with primary biliary tissue.

Project description:We established a step-wise protocol for the generation of human induced pluripotent stem cells (hPSCs) derived cholangiocyte-like cells (CLCs). The aim of this experiment was to provide in depth characterisation of the transcriptome of CLCs. These cells were compared with two of their in vitro progenitors, hPSCs and hepatoblasts (HBs), and to freshly isolated primary biliary tissue.

2015-05-26 | E-MTAB-2965 | biostudies-arrayexpress

4sUDRB-seq of human PA1 cells, undifferentiated H9 cells and H9 differentiated FB neurons

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2016-04-08 | GSE73325 | GEO

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