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

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

PROVIDER: PRJNA982074 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25583104_1.fastq.gz	Fastqsanger.gz
	SRR25583104_2.fastq.gz	Fastqsanger.gz
	SRR25583105_1.fastq.gz	Fastqsanger.gz
	SRR25583105_2.fastq.gz	Fastqsanger.gz
	SRR25583106_1.fastq.gz	Fastqsanger.gz

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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.

2024-05-23 | GSE234572 | GEO

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.

2024-05-23 | GSE253876 | GEO

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) encountering Streptococcus pneumoniae.

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

| PRJNA1067602 | ENA

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

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

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ScRNA-seq analysis of in vivo rat choroid and rat choroid in vitro co-cultured with human pluripotent stem cell (hPSC) derived endothelial cells

Project description:Choroidal atrophy is a common fundus pathological change closely related to the development of age-related macular degeneration (AMD), retinitis pigmentosa, and pathological myopia. Studies suggested that choroidal endothelial cells (CECs) that form the choriocapillaris vessels are the first cells lost in choroidal atrophy. Endothelial cells derived from human pluripotent stem cells (hPSC-ECs) can form blood vessels in vivo and in vitro. We isolated rat choroid and co-cultured with hPSC-ECs. Single-cell RNA-seq (scRNA-seq) studies showed that rat choroid ECs seemed to lose endothelial identity while hPSC-ECs upregulated angiogenesis and hypoxia genes after interacting with choroid.

2024-03-13 | GSE235990 | GEO

Microarray of 3D cultured basal cells co-cultured with M2-like macrophages

Project description:Microarray of 3D cultured basal cells co-cultured with M2-like macrophages

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hPSC-derived Venous Angioblasts Generate Mature Fenestrated LSECs Following Intrahepatic Transplantation

Project description:The vasculature of the liver is highly specialized and critical to organ function as well as future efforts to engineer new liver tissue. One key vascular sub type, the liver sinusoidal endothelial cell (LSEC) lines the hepatic sinusoid mediating functions such as passing nutrients to hepatocytes, scavenging blood components, secreting FVIII, and mediating regeneration. To better understand human LSECs and to generate them from human pluripotent stem cells, we differentiated hPSCs to venous endothelial progenitors known as angioblasts, transplanted them intrahepatically in NSG newborn mice, waited 77-days, and isolated the hPSC-derived cells (DAPI-, tdRFP+) for scRNA-seq. This scRNA-seq sample represents a large number of hPSC-derived, matured hepatic- origin fibroblast and endothelial cell types. Providing a high resolution, large sample population of cells that correlate closely to MacParland et al. (2018, Nat. Commun.) hepatic endothelial clusters providing increased cell population resolution sufficient for human LSEC zonation assessment in a tractable transplantation system.

2020-07-07 | GSE131987 | GEO

The Second Generation of CAR-iMACs with Enhanced Polarization, CAR-mediated Efferocytosis and Superior Potency against Solid Tumors

Project description:Chimeric antigen receptor (CAR)-T cell therapies have shown great success in treating hematologic malignancies. Nonetheless, their therapeutic effect on solid tumors remains to be improved. Recently, macrophages have attracted great attention, given their ability to infiltrate solid tumors, phagocytize tumor cells as well as their immunomodulatory capacities. The first generation of CD3ζ-based CAR-macrophages demonstrated that the CAR could stimulate macrophage phagocytosis in a tumor antigen-dependent way. Here, we genetically engineered induced pluripotent stem cell (iPSC)-derived macrophages (iMACs) with TLR4 intracellular TIR domain-containing CARs against EGFRvIII and GPC3, which yielded markedly enhanced antitumor effect in two different solid tumor models including glioblastoma, and hepatocellular carcinoma in which complete remission was achieved with CAR-iMACs alone or in combination with CD47 antibody. Moreover, the tandem CD3ζ-TIR-CAR, or the “second-generation” design of TIR-based dual signaling CAR, endowed iMACs with both target engulfment/efferocytosis capacity against antigen-expressing solid tumor cells, and potency of antigen-dependent M1 state polarization and M2 state resistance in an NF-κB dependent manner. We also illustrated a surprising mechanism of tumor cell elimination by CAR-induced efferocytosis against tumor cell apoptotic bodies. Taken together, we established the next generation CAR-iMACs equipped with orthogonal phagocytosis and polarization capacity for better antitumor functions in treating solid tumors.

2023-09-29 | GSE214140 | GEO

MicroRNA expression profile of human hepatic stellate cells LX-2 co-cultured with human umbilical cord mesenchymal stem cells and control group

Project description:Hepatic stellate cells(HSCs) are the main effector cells of liver fibrosis. In order to study the effect of mesenchymal stem cells(MSCs) on microRNAs expression of HSCs, we co-cultured HSCs LX-2 activated by TGFβ1 with human umbilical cord MSCs(hUC-MSCs) for 48 hours, and compared the differentially expressed miRNA with LX-2 cultured alone by high-throughput sequencing. The results showed that two mature microRNAs expressed increased, and nine expressed decreased.

2020-05-24 | GSE151098 | GEO

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