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ABSTRACT: Sequencing of osteoclast precursor cells treated with or without DKK1

PROVIDER: PRJNA763250 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15900462_1.fastq.gz	Fastqsanger.gz
	SRR15900462_2.fastq.gz	Fastqsanger.gz
	SRR15900463_1.fastq.gz	Fastqsanger.gz
	SRR15900463_2.fastq.gz	Fastqsanger.gz
	SRR15900464_1.fastq.gz	Fastqsanger.gz

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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

Sequencing of osteoclast precursor cells treated with or without DKK1

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

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M-CSF priming of osteoclast precursors can cause osteoclastogenesis-insensitivity, which can be prevented and overcome on bone

Project description:Comparison of gene expression of the osteoclast precursor myeloid blast seeded on plastic and on bone, primed with M-CSF for 4 days and culture with M-CSF and RANKL for 1 day. Osteoclasts and macrophages share progenitors that must receive decisive lineage signals driving them into their respective differentiation routes. Macrophage colony stimulation factor M-CSF is a common factor; bone is likely the stimulus for osteoclast differentiation. To elucidate the effect of both, shared mouse bone marrow precursor myeloid blast was pre-cultured with M-CSF on plastic and on bone. M-CSF priming prior to stimulation with M-CSF and osteoclast differentiation factor RANKL resulted in a complete loss of osteoclastogenic potential without bone. This coincided with a steeply decreased expression of osteoclast genes TRACP and DC-STAMP, but an increased expression of the macrophage markers F4/80 and CD11b. Compellingly, M-CSF priming on bone accelerated the osteoclastogenic potential: M-CSF primed cells that had received only one day M-CSF and RANKL and were grown on bone already expressed an array of genes that are associated with osteoclast differentiation and these cells differentiated into osteoclasts within 2 days. This implies that adhesion to bone dictates the fate of osteoclast precursors. Common macrophage-osteoclast precursors may become insensitive to differentiate into osteoclasts and regain osteoclastogenesis when bound to bone or when in the vicinity of bone. Two conditions: Osteoclast precursors on plastic and on bone, n=4, dye swap

2014-06-02 | E-GEOD-58146 | biostudies-arrayexpress

RANK ligand converts the NCoR/HDAC3 co-repressor to a PGC1β- and RNA-dependent co-activator of osteoclast gene expression [ATAC-seq]

Project description:To investigate the enhancer/promoter activity in the regulation of osteoclast differentiation, we used bone marrow cells treated with or without RANKL. We then analyzed open chromatin regions obtained from ATAC-seq data.

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Proteomic analysis of UCHL1 conditional knockout mice

Project description:Proteomic analysis of osteoclast precursor cells of UCHL1 conditional knockout mice and wild-type mice was performed

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M-CSF priming of osteoclast precursors can cause osteoclastogenesis-insensitivity, which can be prevented and overcome on bone

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

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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.

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Characterization of functional reprogramming during osteoclast development using quantitative proteomics and mRNA profiling

Project description:Supplemental data for the article: Characterization of functional reprogramming during osteoclast development using quantitative proteomics and mRNA profiling Eunkyung An, Manikandan Narayanan, and Aleksandra Nita-Lazar* *corresponding author: Cellular Networks Proteomics Unit Laboratory of Systems Biology National Institute of Allergy and Infectious Diseases National Institutes of Health Bethesda, Maryland, 20892, USA Tel. +1 301-451-4394 Fax: +1 301-480-5170 E-mail: nitalazarau@niaid.nih.gov This dataset includes: 1. Raw LC-MS(/MS) spectra (*.raw), and 2. The output from data analyses using IP2 (Intergrated Proteomics Application, San Diego, CA) searched against the UniProt_mouse_01-18-2011 set of protein sequences (normal + reversed). Note that the version of IP2 that was used could only analyze two SILAC channels at a time, so two analyses were performed (light-medium, light-heavy) (the current version can analyze 3-plex SILAC all together in one analysis). Also, IP2 was run using two criteria (1 or 2 peptides per protein). Lanes D and E were lanes of an SDS-PAGE gel, and each was 3-plex SILAC: Lane D: Light (Osteoclast Precursor), Medium (Mature Osteoclast), Heavy (Intermediate Osteoclast) Lane E: Light (Osteoclast Precursor), Medium (Intermediate Osteoclast), Heavy (Mature Osteoclast)

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