Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Strand-Specific Nuclear Transcriptome Analysis of Osteoclast Precursor Cells

ABSTRACT: Strand-Specific Nuclear Transcriptome Analysis of Osteoclast Precursor Cells

PROVIDER: PRJNA839638 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19309643_1.fastq.gz	Fastqsanger.gz
	SRR19309643_2.fastq.gz	Fastqsanger.gz
	SRR19309644_1.fastq.gz	Fastqsanger.gz
	SRR19309644_2.fastq.gz	Fastqsanger.gz
	SRR19309645_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Strand-Specific Nuclear Transcriptome Analysis of Osteoclast Precursor Cells

Project description:To understand the pathogenic mechanisms of bone erosion in rheumatoid arthritis (RA), we investigated osteoclast-specific epigenetic programs, RANKL-responsive super-enhancers (SEs) and SE-associated enhancer RNAs (SE-eRNAs) in human osteoclasts. In this dataset, we validated the presence of the predicted SE-eRNAs.

2022-11-01 | GSE203359 | GEO

Sequencing of osteoclast precursor cells treated with or without DKK1

Project description:DKK1 recruits osteoclast precursor cells in a concentration gradient-dependent manner. In order To clarify the transcriptome changes when osteoclast precursor cells are recruited by DKK1.We compared the expression profiles of osteoclast precursor cells with or without DKK1 stimulation.

2023-09-16 | GSE184248 | GEO

Base-Level Resolution Run-On Sequencing in Osteoclast Precursor Cells

Project description:Base-Level Resolution Run-On Sequencing in Osteoclast Precursor Cells

| PRJNA839622 | ENA

Sequencing of osteoclast precursor cells treated with or without DKK1

Project description:Sequencing of osteoclast precursor cells treated with or without DKK1

| PRJNA763803 | ENA

Genome-wide analysis of gene expression in osteoclast precursor cells cultured for 3 days with either M-CSF or M-CSF + RANKL

Project description:Genome wide expression analysis of murine bone marrow osteoclast precursor cells that were cultured for 3 days either with macrophage colony stimulating factor (M-CSF) alone to remain as monocytes or M-CSF + receptor activator of NF-kB (RANKL) to differentiate down the osteoclast lineage. Results provide important information on genes that are regulated by RANKL in order to drive commitment to the osteoclast lineage.

2019-04-05 | GSE129334 | GEO

NF-κB-direct activation of microRNAs with repressive effects on monocyte-specific genes is critical for osteoclast differentiation

Project description:In this study, analysis of miRNA expression changes in osteoclast differentiation from human primary monocytes revealed the rapid upregulation of two miRNA clusters, miR-212/132 and miR-99b/let-7e/125a. We demonstrate that they negatively target monocyte-specific and immunomodulatory genes like TNFAIP3, IGF1R and IL15. Depletion of these miRNAs inhibits osteoclast differentiation and upregulates their targets. These miRNAs are also upregulated in other inflammatory monocytic differentiation processes. Most importantly, we demonstrate for the first time the direct involvement of Nuclear Factor kappa B (NF-κB) in the regulation of these miRNAs, as well as with their targets, whereby NF-κB p65 binds the promoters of these two miRNA clusters and NF-κB inhibition or depletion results in impaired upregulation of their expression. Human primary CD14+ cells isolated from three different donors, and differentiated into osteoclast with MCSF and RANKL for 21 days. miRNA expression analyzed in paired samples at day 0, 2 and 21

2014-12-03 | E-GEOD-63773 | biostudies-arrayexpress

Specialization of the Drosophila nuclear export family protein, Nxf3, for piRNA precursor export

Project description:The piRNA pathway is a conserved small RNA-based immune system that protects animal germ cell genomes from the harmful effects of transposon mobilisation. In Drosophila ovaries, most piRNAs originate from dual-strand clusters, which generate piRNAs from both genomic strands. Dual-strand clusters use non-canonical transcription mechanisms. Although transcribed by RNA polymerase II, cluster transcripts lack splicing signatures and polyA tails. mRNA processing is important for general mRNA export mediated by Nuclear export factor 1. Although UAP56, a component of the transcription and export complex, has been implicated in piRNA precursor export, it remains unknown how dual-strand cluster transcripts are specifically targeted for piRNA biogenesis by export from the nucleus to cytoplasmic processing centers. Here we report that dual-strand cluster transcript export requires CG13741/Bootlegger and the Drosophila Nuclear export factor family protein, Nxf3. Bootlegger is specifically recruited to piRNA clusters and in turn brings Nxf3. We find that Nxf3 specifically binds to piRNA precursors and is essential for their export to piRNA biogenesis sites, a process that is critical for germline transposon silencing. Our data shed light on how dual-strand clusters bypass canonical mRNA features to be specifically exported via Nxf3, ensuring proper piRNA production

2019-07-29 | PXD014472 | Pride

Base-Level Resolution Run-On Sequencing in Osteoclast Precursor Cells

Project description:To understand the pathogenic mechanisms of bone erosion in rheumatoid arthritis (RA), we investigated osteoclast-specific epigenetic programs, RANKL-responsive super-enhancers (SEs) and SE-associated enhancer RNAs (SE-eRNAs) in human osteoclasts. This dataset contains precision run-on sequencing (PRO-seq) data performed to detect SE-eRNA transcription activity.

2022-11-01 | GSE203356 | GEO

Specialization of the Drosophila nuclear export family protein, Nxf3, for piRNA precursor export

2019-07-27 | GSE133528 | GEO

Investigation of Genomic RNA Polymerase II-Rich Locations in Osteoclast Precursor Cells

2022-11-01 | GSE203355 | GEO