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Genome-wide chromatin accessibility and transcriptome-wide expression changes over time in cultured primary human monocytes due to DMOG treatment

ABSTRACT: Genome-wide chromatin accessibility and transcriptome-wide expression changes over time in cultured primary human monocytes due to DMOG treatment

PROVIDER: PRJNA698944 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13611100_1.fastq.gz	Fastqsanger.gz
	SRR13611100_2.fastq.gz	Fastqsanger.gz
	SRR13611300_1.fastq.gz	Fastqsanger.gz
	SRR13611300_2.fastq.gz	Fastqsanger.gz
	SRR13611101_1.fastq.gz	Fastqsanger.gz

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Transcriptome-wide expression changes over time in cultured primary human monocytes due to DMOG treatment

Project description:RNA sequencing of primary human monocytes cultured with and without hypoxia-mimetic agent DMOG (Dimethyloxalylglycine). Monocytes isolated from PBMCs of 7 healthy donors were cultured with and without DMOG for 24hrs and harvested at 0, 2, 10 or 24hrs for RNA sequencing. DMOG suppresses HIF Prolyl hydroxylase (HIF-PH) activity by acting as a small molecule competitive inhibitor. HIF-PH inhibition leads to increase in endogenous HIF protein levels and mimics aspects of hypoxia. This RNA-seq study allows analysis of transciptome-wide expression pattern changes over time due to DMOG treatment.

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Transcriptome-wide expression changes over time in cultured primary human monocytes due to DMOG treatment

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Project description:We report the application of standard RNA-sequencing technology for high-throughput profiling of differential gene expression in mammalian cells. This study aims to compare differential gene expression in human monocytes in the absence or presence of HMGB1 and DMOG exposure would mimic hypoxia. Human monocytes (five million cells) from a healthy donor were divided into four groups in triplicate (control, DMOG, HMGB1 or HMGB1_DMOG). RNA isolation, RNA integrity check, library preparation and ~350M raw paired-end reads per lane (Illumina HISeq. 2x150 bp sequencing) were conducted at GENEWIZ, LLC. We find that increased TNF signaling induced by HMGB1 and enhanced when DMOG was present, and reduced IFN signaling in DMOG in unstimulated and HMGB1-stimulated conditions. We conclude that RNA-seq based UP and DOWN regulated genes/pathways characterization would confirm our results and expedite genetic network analyses.

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Genome-wide chromatin accessibility and transcriptome-wide expression changes over time in cultured primary human monocytes due to DMOG treatment

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Expression data from the hepatic stellate cell line LX-2 after treatment with DMOG and from the liver sinusoidal endothelial cell line TRP3 after incubation with conditioned medium of DMOG-treated LX-2

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