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Regularity of Chondrocyte Phenotypic Changes Identified by Single-cell Sequencing in vitro

ABSTRACT: The specific mechanism of phenotypic change of chondrocytes in vitro remains unclear. We performed single-cell sequencing of P1,P3, and P6 cells in vitro to explore the mechanisms involved.

ORGANISM(S): Homo sapiens

PROVIDER: GSE270642 | GEO | 2025/06/16

REPOSITORIES: GEO

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Changes in chromatin accessibilityof chondrocytes identified by ATAC-seq in vitro

Project description:Chromatin accessibility change of chondrocytes in vitro remains unclear. We performed ATAC-seq of P1,P3, and P6 cells in vitro to explore chromatin accessibility change.

2025-06-16 | GSE270644 | GEO

Microarray analysis of lncRNAs and mRNAs in the process of human hyaline chondrocyte dedifferentiation in vitro

Project description:Autologous chondrocyte implantation (ACI) is an effective method to treat chronic articular cartilage injury in recent years, which requires a large number of human hyaline chondrocytes. Unfortunately, human hyaline chondrocytes often undergo dedifferentiation in vitro. Thus, it is important to elucidate the mechanism of dedifferentiation for the application of ACI technology. Long noncoding RNAs (lncRNA) play a regulatory role in gene expression in many pathological and physiological processes. However, the role of lncRNAs in human hyaline chondrocyte dedifferentiation remains unclear. The aim of this study was to investigate the expression profiles of lncRNAs in human hyaline chondrocyte dedifferentiation during in vitro culture. First, we cultured human hyaline chondrocytes in vitro and detected the expression of COL1A1, COL2A1, and SOX-9 in passage 1 (P1) and 5 (P5) chondrocytes using quantitative real-time polymerase chain reaction (qRT-PCR), immunofluorescence, and western blotting. Then, we analyzed the expression profiles of lncRNAs and mRNAs in P1 and P5 chondrocytes by microarray analysis.

2020-02-25 | GSE145817 | GEO

Regularity of Chondrocyte Phenotypic Changes Identified by Single-cell Sequencing in vitro

Project description:Regularity of Chondrocyte Phenotypic Changes Identified by Single-cell Sequencing in vitro

| PRJNA1127617 | ENA

Changes in DNA methylation accompany changes in gene expression during chondrocyte hypertrophic differentiation in vitro.

Project description:BACKGROUND: During osteoarthritis (OA), articular chondrocytes undergo phenotypic changes that resemble developmental patterns characteristic of growth plate chondrocytes. These phenotypic alterations lead to a hypertrophy-like phenotype characterized by altered production of extracellular matrix constituents and increased collagenase activity, which in turn results in cartilage destruction in OA disease. PURPOSE: To identify transcriptomic and epigenomic changes in murine primary articular chondrocytes undergoing hypertrophy-like differentiation in vitro. METHODS: We paired an in vitro 3D/pellet culture system that mimics chondrocyte hypertrophy with RNA sequencing (RNA-Seq) and enhanced reduced representation of bisulfite sequencing (ERRBS). RESULTS: We identified hypertrophy-associated changes in DNA methylation patterns in vitro. Integration of RNA-Seq and ERRBS datasets identified associations between changes in methylation and gene expression. CONCLUSION: Our integrative analyses showed that hypertrophic differentiation of articular chondrocytes is accompanied by transcriptomic and epigenomic changes in vitro.

2020-10-01 | GSE154949 | GEO

DNA methylation profiling in chondrocyte dedifferentiation in vitro

Project description:Genome wide DNA methylation profiling of different passages of human articular chondrocytes treated with 5-azacytidine. The Illumina Infinium 450k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,578 CpGs.Samples included 6 different passages of human articular chondrocytes with 5-azacytidine treatment, 6 different passages without 5-azacytidine treatment, Bisulphite converted DNA from the 12 samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip v1.2

2015-01-31 | E-GEOD-65467 | biostudies-arrayexpress

DNA methylation profiling in chondrocyte dedifferentiation in vitro

2015-01-31 | GSE65467 | GEO

Global Gene Expression of H9 hESC with different passage numbers

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Effects of Lin28a overexpression on gene expression changes during culturing neural stem cells (NSCs) derived from mouse embryonic ventral midbrain (VM)

Project description:Purpose: we want to see gene expression changes during in vitro expansion of VM-derived NSCs (VM-NSCs) with cell passges in the absence or presence of Lin28a overexpression. changes upon Lin28 overexpression in P1 and P3 stages of Neural stem cells. RNA-seq, sRNA-seq, and Polysome-seq with/without Lin28 overexpression in P1 and P3 stages of Neural stem cells.

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Sirt3 Promotes Chondrogenesis, Chondrocyte Mitochondrial Respiration and the Development of High-Fat Diet-Induced Osteoarthritis in Mice

Project description:Cartilage is characterized by mature chondrocyte metabolic heterogeneity in a zone-dependent manner. In this study, we used single cell mRNA sequencing (scRNA-seq) to evaluate the corresponding functional and metabolic phenotypic heterogeneity of in vitro cultured primary juvenile murine chondrocytes

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Analysis of differential gene expression during Bacillus subtilis spore outgrowth

Project description:The transcriptome of 8 strains were studied during 7 stages of the Morphological phases of sporulation P0 = Resuspention of cells in sporulation medium; P1 = Onset of sporulation before asymmetric division; P2 = Visible asymmetric septum; P3 = Ongoing engulfment of the forespore compartment by the mother cell compartment of sporulating cells; P4 = Completed engulfment (engulfed phase-dark forespores are surrounded by the mother-cell cytoplasm); P5 = Maturation (ongoing dehydration of the forespore core seen as a transition of phase-dark forespores into phase-bright foresppores); P6 = Phase-bright forespores (sporulation almost completed, mother-cells contain phase-bright dehydrated forespores).

2018-03-08 | GSE108659 | GEO

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