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Transcription factor induction of vascular blood stem cell niches in vivo [scRNA-Seq.Adult-Kidney]

ABSTRACT: We report single cell gene expression data for FACS-isolated zebrafish kdrl(flk1):mCherry or kdrl(flk1):GFP positive cells collected from adult kidneys.

ORGANISM(S): Danio rerio

PROVIDER: GSE227115 | GEO | 2023/03/23

REPOSITORIES: GEO

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Transcription factor induction of vascular blood stem cell niches in vivo [scRNA-Seq.Embryo-Niche]

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Transcription factor induction of vascular blood stem cell niches in vivo [RNA-Seq]

Project description:We report gene expression data for FACS sorted zebrafish kdrl(flk1):GFP + and kdrl:mCherry+;sele(5.3kb):GFP+ double positive cells collected from whole embryos at 72 hours post fertilization (hpf). We also report gene expression data for the kdrl:GFP negative fraction.

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Transcription factor induction of vascular blood stem cell niches in vivo [ATAC-Seq 2]

Project description:We report accessible chromatin genomic regions using ATAC-sequencing of zebrafish double transgenic for kdrl(flk1):mCherry and sele:GFP from FACS-isolated double positive, single positive, and double negative cells collected from whole embryos at 72 hours post fertilization (hpf).

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Transcription factor induction of vascular blood stem cell niches in vivo [scRNA-Seq]

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Transcription factor induction of vascular blood stem cell niches in vivo [ATAC-Seq]

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2023-03-23 | GSE124147 | GEO

A Novel Perivascular Cell Population in the Zebrafish Brain

Project description:Purpose: RNA-seq analysis from isolated zebrafish fluorescent granular perithelial (FGP) cells in adult brains compared to endothelial cells or entire fish. Method: FGPs and endothelium were isolated by FACS sorting using transgenic line Tg(kdrl:mCherry);Tg(mrc1a:eGFP).

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Transcriptomic profile of zebrafish liver cells in thioacetamide (TAA) model

Project description:Zebrafish transgenic lines Tg(fabp10a:dsRed), Tg(hand2:EGFP) and Tg(kdrl:ras-mCherry) in AB wild-type background were anesthetized with MS-222 and adult females were injected intraperitoneally with 500 mg/kg thioacetamide (TAA) or sterile water as a control 6 times over the course of 2 weeks. We have characterized transcriptomic profiles of FACS-isolated hepatocytes (dsRed+), stellate cells (EGFP+) and liver endothelial cells (mCherry+) from fishes treated with TAA or sterile water. Cells negative for the fluorescence were used as a control.

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Genome-wide chromatin accessibility profiles of zebrafish liver cells in thioacetamide (TAA) model

Project description:Zebrafish transgenic lines Tg(fabp10a:dsRed), Tg(hand2:EGFP) and Tg(kdrl:ras-mCherry) in AB wild-type background were anesthetized with MS-222 and adult females were injected intraperitoneally with 500 mg/kg thioacetamide (TAA) or sterile water as a control 6 times over the course of 2 weeks. We have characterized chromatin accessibility profiles of FACS-isolated hepatocytes (dsRed+), stellate cells (EGFP+) and liver endothelial cells (mCherry+) from fishes treated with TAA or sterile water. Cells negative for the fluorescence were used as a control.

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Comparison of the expression profiles of kdrl:mCherry-positive cells in injured versus uninjured zebrafish cardiac ventricle and analysis of the expression prolife of postnb:citrin-positive cells upon injury compared to the rest of cardiac cells.

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