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Genome-wide maps of mRNAs and ncRNAs in aging and young dental pulp stem cells

ABSTRACT: Genome-wide maps of mRNAs and ncRNAs in aging and young dental pulp stem cells

PROVIDER: PRJNA770667 | ENA |

REPOSITORIES: ENA

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Genome-wide maps of mRNAs and ncRNAs in aging and young dental pulp stem cells

Project description:Purpose: The goals of this study are to compare differentially expressed genes in young dental pulp stem cells to the aging dental pulp stem cells and to predict key regular factors. Methods: mRNA and ncRNA profiles of young and aging dental pulp stem cells were generated by deep sequencing, using BGISEQ-500 platform (BGI-Shenzhen, China). The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Agilent Technologies 2100 system and real-time quantitative PCR (QPCR) (TaqMan Probe). Results:After filtering out adaptor-related and low-quality sequences, 669 million clean reads in mRNA Library were generated. Clean reads was mapped to genome sequence with the mapping ratio from 88.54% to 97.61%. A total of 230487 mRNAs was obtained including 123724 known mRNAs and 106763 novel mRNAs respectively; In addition, we detected 177880 lncRNAs，139743 and 38137 were known and novel. For correlation analysis, the coefficient we obtained were all greater than 0.90, indicating a high biological correlation Conclusions: Our study represents the first detailed analysis of differentially expressed genes in aging and young dental pulp stem cells, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that hsa-miR-6724-5p may be a key node in the aging process of DPSCs, and its target genes was involved in the dopaminergic synapse

2021-11-28 | GSE185751 | GEO

Landscape of cell populations and communication in normal and aging inflammatory dental pulp

Project description:We profiled the cell populations in dental pulp from two normal premolars and one aging inflammatory molar through single-cell RNA sequencing.

2022-01-21 | GSE167251 | GEO

Gene expression analysis of human permanent dental pulp

Project description:Gene expression analysis data of human permanent dental pulp tissues

2016-11-22 | GSE75644 | GEO

Characterization of human dental pulp cells grown in chemically defined serum-free medium

Project description:Dental pulp cells obtained from several donors proliferated actively in a serum-free medium STK2. The growth rate of dental pulp cells from most donors was higher in the serum-free medium than that in a medium containing 10% serum. DNA microarray analyses showed that gene expression profile of dental pulp cells grown in the serum-free medium was similar to that of cells grown in a medium containing 10% serum. However, several genes related to cell proliferation were up-regulated in dental pulp cells grown in the serum-free medium.

2018-03-14 | GSE97199 | GEO

SAHA Rat Dental Pulp

Project description:Transcriptional response of rat dental pulp cells (DPCs) cultured with SAHA at early and late mineralisation time points Transcript profiling of DPC identified several novel genes expression induced and supressed by HDACi at 24 hrs and 14 days under mineralising conditions. SAHA induces several members of the MMP family of endopepsidases (TIMP-1, MMP-9, MMP-13) and other members of the endochondral ossification pathway at 24 h. 8 experiemental parameters were analysed, each carried out in quadruplicate

2015-06-16 | E-GEOD-67175 | biostudies-arrayexpress

Comparative gene expression analysis of the human dental pulp in deciduous and permanent teeth

Project description:Human deciduous and permanent teeth exhibit different developmental processes, morphologies, histological characteristics and life cycles. In addition their pulp tissues react differently to external stimuli, such as the pulp sensitivity test, dental trauma and pulp therapy materials. These differences are attributable to their genetic backgrounds. Therefore the purpose of this study is to compare the differences of dental pulp in deciduous and permanent teeth. Pulp samples were obtained from permanent premolars (n=6, aged 11-14 years) and deciduous teeth (n=6, aged 11-14 years). Comparative cDNA microarrary analysis revealed several differences in gene expression between the deciduous and permanent pulp tissues. Each GSM record represents a pulp sample pooled from two teeth samples.

2014-08-21 | E-GEOD-51449 | biostudies-arrayexpress

Effect of EtOH on transcriptome signatures in human dental pulp stem cells

Project description:We have performed gene expression microarray analysis to profile transcriptomic signatures affected by EtOH in human dental pulp stem cells Established human dental pulp stem cells were treated with different dose of EtOH (0, 1, 5, 10, 20 and 50mM) for a different time periods (24 and 48 hrs). Total RNA was extracted and subjected to gene expression microarray analysis using Affymetrix human genome 2.0 plus array

2014-05-03 | E-GEOD-57255 | biostudies-arrayexpress

Differential gene expression of Wnt ligands/Wnt agonist treated human dental pulp stem cells

Project description:Wnt regulates various cell responses. In dental pulp cells, Wnt signaling control cell proliferation, apoptosis, migration and differentiation. Here, the differential gene expression of human dental pulp stem cells treated with Wnt ligands or Wnt agonist was examined using a high throughput RNA sequencing technique. Results demonstrated that Wnt ligands or Wnt agonist altered numerous gene expression in human dental pulp stem cells.

2022-12-09 | GSE183444 | GEO

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

Comparative gene expression analysis of the human dental pulp in deciduous and permanent teeth

2014-08-21 | GSE51449 | GEO

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