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Bone marrow-derived and dental pulp-derived human mesenchymal stem cell RNA-Seq

ABSTRACT: Bone marrow-derived and dental pulp-derived human mesenchymal stem cell RNA-Seq

PROVIDER: PRJNA414958 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6189571_1.fastq.gz	Fastqsanger.gz
	SRR6189571_2.fastq.gz	Fastqsanger.gz
	SRR6189572_1.fastq.gz	Fastqsanger.gz
	SRR6189572_2.fastq.gz	Fastqsanger.gz
	SRR6189573_1.fastq.gz	Fastqsanger.gz

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Bone marrow-derived and dental pulp-derived human mesenchymal stem cell RNA-Seq

Project description:Lineage commitment and tumorigenesis specify adult stem cells from different tissues or organs. To gain insight into the mechanism of this programming, phenotypic, functional and transcriptome analyses were performed in mesenchymal stem cells derived from human dental pulp (DPSCs) and bone marrow (BMSCs). DPSCs and BMSCs had similar morphologies and flow cytometric profiles, and were capable of tri-lineage differentiation into osteoblast, adipocyte and chondocyte. However, compared with BMSCs, DPSCs increased in osteogenic potential, decreased in adipogenic potential, and formed dentin-pulp-like complexes in vivo. Genome-wide RNA-seq and differential expression analysis revealed that signalings such as, phosphatase and tensin homolog (PTEN)/PI3K/AKT pathway, and cancer-related pathway were different in both cells. Differential PTEN expression, higher in DPSCs than BMSCs, was responsible for the lineage commitment and tumorigenesis differences in both cells. Besides, BMSCs decreased in PTEN DNA methylation compared to DPSCs, which was mediated by increased DNA (cytosine-5) methyltransferase 3B (DNMT3B) expression. Furthermore, histone methyltransferase G9a mediated repressive epigenetic mark H3K9Me2 was selectively enriched in BMSCs. Moreover, DPSCs were more resistant to oncogenic transformation than BMSCs. To link lineage commitment with tumorigenesis, we demonstrated that DPSCs were more resistant to oncogenic transformation than BMSCs and PTEN deficiency increased the sensitivity of DPSCs for tumorigenic transformation. The results help understanding the roles of the epigenetic factors in lineage commitment and tumorigenesis and also for therapeutic uses of adult stem cells.

2019-03-17 | GSE105145 | GEO

Different osteogenic differentiation behavior of canine mesenchymal stem cells derived from bone marrow and dental pulp: the proteomics profile

Project description:Although various sources of cMSCs show similar characteristics, they are different in osteogenic potential due to their original cellular sources. Thus, this study was designed to globally explore and analyze the in vitro differentiation potential and behavior of canine bone-marrow derived mesenchymal stem cells (cBM-MSCs) and canine dental pulp stem cells (cDPSCs) toward osteogenic lineage. Global study of an in vitro osteogenic differentiation potential of the isolated cells was performed using proteomic-based analysis through mass spectrometry with dimethyl labelling method at day 7 and 14 post-induction, comparing with undifferentiated cells. The obtained results could be used as a comprehensive data and principal knowledge of the osteogenic differentiation potential of cBM-MSCs and cDPSCs in vitro and the trend of MSC-based tissue engineering for osteogenic regenerative therapy, concentrating on cMSCs application.

2021-09-08 | PXD015512 | Pride

RNA-Seq analysis of neurons derived from induced pluripotent stem cells reprogrammed from dental pulp

Project description:In this study, we investigated its suitability for disease modeling by carrying out gene expression profiling, using RNA-seq, on neurons derived from iPSCs made from dental pulp extracted from deciduous teeth (T-iPSCs) and fibroblasts (F-iPSCs). Comparison of expression profiles of iPSC derived from dental pulp and skin-fibroblast

2013-05-01 | E-GEOD-43143 | biostudies-arrayexpress

Dental pulp microbiome

Project description:Dental pulp

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Dental pulp cell-derived powerful inducer of TNF-alpha comprises PKR containing stress granule rich microvesicles (pDCvsGF)

Project description:It is well known that dental pulp tissue can evoke some of the most severe acute inflammation observed in the human body. We found that dental pulp cells secrete a factor that induces tumor necrosis factor-α production from macrophages, and designated this factor, dental pulp cell-derived tumor necrosis factor-α-inducing factor (DPTIF). DPTIF was induced in dental pulp cells and transported to recipient cells via microvesicles. Treatment of dental pulp cells with a PKR inhibitor markedly suppressed DPTIF activity, and weak interferon signals were constitutively activated inside the cells. In recipient macrophages, stimulation with DPTIF-containing supernatants from pulp cells resulted in activation of both nuclear factor-κB and MAP kinases like JNK and p38. Proteomics analyses revealed that many stress granule-related proteins were present in supernatants from dental pulp cells as well as microvesicle marker proteins like GAPDH, β-actin, HSPA8, HSPB1, HSPE1, and HSPD1. Furthermore, giant molecule AHNAK and PKR were detected in microvesicles derived from dental pulp cells, and gene silencing of AHNAK in pulp cells led to reduced DPTIF activity. Thus, it appeared that the core protein of DPTIF was PKR, and that PKR was maintained in an active state in stress granule aggregates with AHNAK and transported via microvesicles. The activity of DPTIF for TNF-α induction was far superior to that of gram-negative bacterial endotoxin. Therefore, we, report for the first time, that active PKR is transported via microvesicles as stress granule aggregates and induces powerful inflammatory signals in macrophages.

2018-12-30 | GSE124491 | GEO

Dental pulp cell-derived powerful inducer of TNF-alpha comprises PKR containing stress granule rich microvesicles (GFvsDP-1)

2018-12-30 | GSE124490 | GEO

RNA Sequence Analysis of postnatal day 7 (P7) control and Tgfbr2-deleted dental pulp mesenchymal cells

Project description:We report on P7 dental pulp root and crown genetics and pathways altered by the deletion of Tgfbr2 in the dental pulp and odontoblast cells to investigate the short tooth root phenotype demonstrated in the Tgfbr2 conditional knockout mice.

2018-11-01 | GSE121285 | GEO

Characteristic expression of MSX1, MSX2, TBX2, and ENTPD1 in dental pulp cells

Project description:Dental pulp cells (DPCs) are a promising source of transplantable cells in regenerative medicine. However, DPCs have not been fully characterized at the molecular level. The purpose of this study was to distinguish DPCs from various source-derived mesenchymal stem cells, fibroblasts, and other cells by the expression of several DPC-characteristic genes. DPCs were isolated from human pulp tissues by the explant method, or the enzyme digestion method, and maintained with media containing 10% serum or 7.5% platelet-rich plasma. RNA was isolated from the cells and from dental pulp tissue specimens. The mRNA levels were determined by DNA microarray and quantitative real-time PCR analyses. The msh homeobox1 (MSX1), msh homeobox 2 (MSX2), T-box 2 (TBX2), and ectonucleoside triphosphate diphosphohydrolase 1 (ENTPD1) mRNA levels in DPCs were higher than the levels found in the following cells: mesenchymal stem cells, derived from bone marrow, synovium, and adipose tissue; and in cells such as fibroblasts, osteoblasts, adipocytes, and chondrocytes. The enhanced expression in DPCs was consistently observed irrespective of donor age, tooth type, and culture medium. Moreover, these genes were expressed at high levels in dental pulp tissue in vivo. We conclude that this gene set may be useful in the identification and characterization of DPCs in basic studies and pulp cell-based regeneration therapy.

2016-06-20 | GSE66084 | GEO

Expression data from human dental pulp stem cells and bone marrow mesenchymal stem cells

Project description:Expression data from human dental pulp stem cells and bone marrow mesenchymal stem cells

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miRNAseq of extracellular vesicles from immortalized dental pulp mesenchymal stem cells from three different biopsies

Project description:Extracellular vesicles (EVs) derived from three different biopsies of dental pulp mesenchymal stem cells (MSC-EVs) were isolated and characterized by different omic analysis. The goal was to characterized the EVs cargo to study their implication in an animal model of chronic cardiac inflammation

2024-06-12 | GSE260506 | GEO

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