Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene regulatory networks underlying human microglia maturation [RNA-seq]

ABSTRACT: Gene regulatory networks underlying human microglia maturation [RNA-seq]

PROVIDER: PRJNA941262 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23707164.fastq.gz	Fastqsanger.gz
	SRR23707165.fastq.gz	Fastqsanger.gz
	SRR23707166.fastq.gz	Fastqsanger.gz
	SRR23707167.fastq.gz	Fastqsanger.gz
	SRR23707168.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 25

Similar Datasets

Gene regulatory networks underlying human microglia maturation

Project description:Gene regulatory networks underlying human microglia maturation

| PRJNA941259 | ENA

Gene regulatory networks underlying human microglia maturation [ATAC-seq]

Project description:Gene regulatory networks underlying human microglia maturation [ATAC-seq]

| PRJNA941243 | ENA

Gene regulatory networks underlying human microglia maturation [ATAC-seq]

Project description:Microglia, the tissue resident macrophages of the brain, are observed as early as the fourth week of human gestation and engage in a variety of processes essential for brain development and homeostasis. Microglia phenotypes are highly regulated by the brain environment but the transcriptional networks that specify their maturation remain poorly understood and the extent to which fetal or postnatal phenotypes can be modeled using iPSC-derived cells has not been systematically investigated. Here, we characterized stage-specific transcriptomes and epigenetic landscapes of fetal and postnatal human microglia ex vivo and acquired corresponding data in iPSC-derived microglia in vitro, in cerebral organoids, and as a function of time following engraftment into humanized mice. By developing new computational approaches that integrate these data to predict state-specific transcription factor networks, we provide evidence that MiTF/TFE and MEF2 factors are key nodes in transcription factor networks associated with fetal microglia phenotypes, whereas MAFB, KLFs and IRF transcription factors are key nodes in the networks associated with postnatal phenotypes. We further demonstrate that many features of the human fetal to postnatal transition in microglia gene expression are recapitulated in a time-dependent manner following the engraftment of iPSC-derived hematopoietic progenitor cells into humanized mice. These studies thereby provide new computational and data resources enabling the elucidation of transcription factor networks underlying stage-specific human microglia phenotypes.

2023-08-14 | GSE226690 | GEO

Gene regulatory networks underlying human microglia maturation [RNA-seq]

2023-08-14 | GSE226705 | GEO

Gene regulatory networks underlying human microglia maturation

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-08-14 | GSE226708 | GEO

Remodeling of gene regulatory networks underlying thermogenic stimuli-induced adipose beiging

Project description:Remodeling of gene regulatory networks underlying thermogenic stimuli-induced adipose beiging

| PRJNA768847 | ENA

Host microbiota constantly control maturation and function of microglia in the central nervous system (part 1)

Project description:As tissue macrophages of the central nervous system (CNS), microglia are critically involved in diseases of the CNS. However, it remains unknown what controls their maturation and activation under homeostatic conditions. Here we reveal significant contributions of the host microbiota to microglia homeostasis as germ-free (GF) mice displayed global defects in microglia with altered cell proportions and an immature phenotype leading to impaired innate immune responses. Temporal eradication of host microbiota severely changed microglia properties. Limited microbiota complexity also resulted in defective microglia. In contrast, recolonization with a complex microbiota partially restored microglia features. We determined that short-chain fatty acids (SCFA), microbiota-derived bacterial fermentation products, regulate microglia homeostasis. Accordingly, mice deficient for the SCFA receptor FFAR2 mirrored microglia defects found under GF conditions. These findings reveal that host bacteria vitally regulate microglia maturation and function, whereas microglia impairment can be restored to some extent by complex microbiota. For acute inflammatory challenges, LPS was applied intracranially and 6 hours later, animals were analyzed. Control animals were injected PBS i.c. Transcriptional profiles of FACS-sorted microglia were assessed using Affymetrix® (Santa Clara, USA) GeneChip Arrays (Mouse Gene 2.1 ST Arrays).

2015-05-25 | E-GEOD-62201 | biostudies-arrayexpress

Single-nucleus multiomics of murine gonads reveals gene-regulatory networks underlying sex determination

Project description:Single-nucleus multiomics of murine gonads reveals gene-regulatory networks underlying sex determination

| PRJNA1216559 | ENA

KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [Hi-C]

Project description:Understanding transcriptional regulatory networks (TRNs) in microglia is key to uncovering mechanisms driving central nervous system (CNS) disorders. Human iPSC-derived models offer a tractable system for studying microglia, yet variability between lines has limited reproducibility. Here, we use the standardized KOLF2.1J iTF line to rapidly generate microglia-like cells (iTF-Microglia) and profile TRNs under homeostatic and inflammatory conditions. iTF-Microglia closely resemble primary brain microglia at both transcriptomic and epigenomic levels. Integrative analyses reveal microglia-enriched candidate cis-regulatory elements (cCREs) and dynamic enhancer remodeling upon differentiation and LPS+IFNG stimulation, involving key transcription factors (TFs) including NF-kB, IRF, and STAT families. TRNs active in iTF-Microglia are enriched for genetic variants linked to Alzheimer’s disease and other CNS disorders. These findings establish KOLF2.1J iTF-Microglia as a reproducible and genetically tractable platform for studying human microglial gene regulation and provide mechanistic insight into how TRN remodeling may contribute to CNS disease risk.

2025-09-10 | GSE299830 | GEO

KOLF2.1J iTF-Microglia: A standardized platform to study microglial transcriptional regulatory networks in CNS disease [ChIP-seq]

2025-09-10 | GSE299829 | GEO