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ScRNA-seq and scATAC-seq analysis of human pluripotent stem cell (hPSC) derived macrophages iMacs

ABSTRACT: ScRNA-seq and scATAC-seq analysis of human pluripotent stem cell (hPSC) derived macrophages iMacs

PROVIDER: PRJNA982081 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24883603_1.fastq.gz	Fastqsanger.gz
	SRR24883603_2.fastq.gz	Fastqsanger.gz
	SRR24883604_1.fastq.gz	Fastqsanger.gz
	SRR24883604_2.fastq.gz	Fastqsanger.gz
	SRR24883605_1.fastq.gz	Fastqsanger.gz

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ScRNA-seq and scATAC-seq analysis of human pluripotent stem cell (hPSC) derived macrophages iMacs

Project description:Purpose: to depict the single-cell map and reveal the heterogeneity of hPSC derived macrophages Methods: Differentiation day 14 iMacs were dissociated to obtain a single-cell suspension. scRNA-seq and scATAC-seq library preparation and sequencing were done by CapitalBio Technology (https://www.capitalbiotech.com/). scRNA-seq, the cell suspension was immediately loaded onto the Chromium Single Cell Controller (10× Genomics) for droplet formation. cDNA and subsequent sequencing library were generated using Chromiun Single Cell 3’ Reagent Kit (v3 Chemistry) (10× Genomics) according to the instruction manual. For sc-ATAC-seq, cell nuclei were extracted with Chromiun Nuclei Isolation Kit (v2 Chemistry) (10x Genomics) and then loaded onto the Chromium Single Cell Controller for droplet formation. Results: ScRNA-seq and scATAC-seq data of differentiation day 14 iMacs from hPSCs Conclusions: day 14 differentiation culture, which consisted primarily of monocytes and macrophages.

2024-05-23 | GSE234577 | GEO

Gene expression analysis of hPSC derived macrophages (iMacs) co-cultured with hepatic cells

Project description:Purpose: to analyze change in gene expression of hPSC derived macrophages upon co-culture with hepatic cells including Huh7 and primary human hepatocytes Methods: SMART-seq2 amplified polyA RNA from sorted iMacs in the co-cultures. Results: the transcriptome of iMacs changed after co-culture with Huh7 cells or pHHs, and changed after the HCV infection of the co-cultured Huh7 cells. Conclusions: the gene expression profiles of co-cultured iMacs indicated that the culture conditions and the microenvironments could reprogrammed iMacs to adopt tissue-specific features and perform specifc functions.

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Gene expression analysis of hPSC-derived macrophages (iMACs) encountering Streptococcus pneumoniae.

Project description:Purpose: to analyze gene expression changes of iMACs encountering S. pneumoniae. Methods: SMART-seq2 amplified polyA RNA from sorted iMACs in the co-cultures. Results: the transcriptome of iMACs changed after encountering S. pneumoniae. Conclusions: the gene expression profiles of S. pneumoniae stimulated iMACs indicated iMACs undergoing inflammatory response and the immune response was distinct with iMACs encountering other pathogens such as HCV or SARS-CoV-2.

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scATAC-seq of early brain organoid development from pluripotency

Project description:To study developmental trajectories in brain organoids, we conducted scRNA-seq and scATAC-seq in parallel on a dense timecourse of early development.

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Gene expression analysis of hPSC-derived macrophages (iMACs) encountering Streptococcus pneumoniae.

Project description:Gene expression analysis of hPSC-derived macrophages (iMACs) encountering Streptococcus pneumoniae.

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