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A novel 3D co-culture model augmented with single-cell sequencing to study the response of breast cancer cells to cisplatin

ABSTRACT: A novel 3D co-culture model augmented with single-cell sequencing to study the response of breast cancer cells to cisplatin

PROVIDER: PRJNA844258 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19502723_1.fastq.gz	Fastqsanger.gz
	SRR19502723_2.fastq.gz	Fastqsanger.gz
	SRR19502724_1.fastq.gz	Fastqsanger.gz
	SRR19502724_2.fastq.gz	Fastqsanger.gz
	SRR19502725_1.fastq.gz	Fastqsanger.gz

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A novel 3D co-culture model augmented with single-cell sequencing to study the response of breast cancer cells to cisplatin

Project description:Three-dimensional (3D) cell direct co-culture is an essential method for cancer research, which can overcome the limitations of traditional research based on cell lines. Single-cell RNA sequencing can detect the cell heterogeneity of direct co-culture of 3D cells at the single-cell level,However, there is still lack verification. The purpose of this study is to verify the superiority of single-cell RNA sequencing combined with 3D cell direct co-culture in breast cancer research and prove that it can become a powerful solution for cancer cell culture in vitro.In this study ,we found that the different cell culture modes showed very different responses to cisplatin intervention. In MCF-7 alone culture mode, there was a large difference in the transcriptome of MCF-7 after cisplatin intervention compared with the group not given drug intervention; while in direct co-culture mode, there was also a difference between the cisplatin intervention group and the control group, but this difference was relatively small. To further seek evidence that the direct co-culture mode is closer to the real environment in vivo, we analyzed the differential genes in the direct co-culture mode, and the enriched signaling pathways were similar to the results in the CancerSEA database, and the enriched signaling pathways included apoptosis, DNA damage, hypoxia, and metastasis. Conclusions: Single-cell sequencing can facilitate direct co-culture of 3D cells in tumor research, a model that more closely resembles the real pathophysiological environment in vivo.

2022-06-04 | GSE205243 | GEO

Gene expression of mouse small intestinal 3D organoid myofibroblast-epithelium co-culture

Project description:The gene expression of mouse wt small intestinal epithelium and myofibroblast,3D organoids, both in monoculture and in co-culture, as well as small interstinal adenoma organoids from the Apc+/1638N mouse model, were measured by Affymetrix Mouse Gene 2.1 ST Array.

2021-12-31 | GSE124684 | GEO

3D + LY vs. 3D culture of HUASMC

Project description:3D + LY vs. 3D culture of HUASMC

| PRJNA552085 | ENA

Proteome comparison of a new human cholangiocarcinoma 3D co-culture tumor model to 3D single cultures.

Project description:Cholangiocarcinomas (CCA) are characterized by their desmoplastic and hypervascularized tumor microenvironment (TME) which is mainly composed of tumor cells and cancer-associated fibroblasts (CAFs). CAFs play a pivotal role in tumor progression, angiogenesis, metastasis and the development of therapy resistance. To our knowledge, no continuous human in vivo-like co-culture model is available for research. Therefore, we aimed to establish a new model that mimics the desmoplastic environment typically seen in CCA. Proteomic data comparing the new CCA tumor cell line with our co-culture tumor model (CCTM) indicated a higher correlation of the CCTM with physiological CCA characteristics according to literature. A pro-angiogenic TME that is typically observed in CCA could also be simulated in the CCTM group. Further analysis of secreted proteins revealed CAFs to be the main source for these angiogenic factors. Our CCTM represents a new, reproducible and easy-to-handle 3D CCA model for preclinical studies focusing on CCA-stromal crosstalk, tumor angiogenesis and invasion, the immunosuppressive microenvironment and the involvement of CAFs in the way that drug resistance develops.

2023-05-10 | PXD037649 | Pride

Predictive Response to Chemotherapy (FOLFOX or FOLFIRI) by ex Vivo Culture 3D Technique in Metastatic Colorectal Cancer

Project description:Prospective, open labelled, multicenter trial to evaluate the feasibility of ex vivo culture 3D (chemogram obtaining) on biopsies in order to estimate the predictive value of this technique for treatment response in patients treated by two different chemotherapies (FOLFOX or FOLFIRI) for colorectal cancer.

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Gene expression of mouse small intestinal 3D organoid myofibroblast-epithelium co-culture

Project description:Gene expression of mouse small intestinal 3D organoid myofibroblast-epithelium co-culture

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Acidophilic co-culture

Project description:Genomic and transcriptomic analysis of acidophilic co-culture

| PRJNA639692 | ENA

Raver2 and Setd2 knockdown of mouse mTECs in a 3D orgonatypic co-culture system

Project description:Raver2 and Setd2 knockdown of mouse mTECs in a 3D orgonatypic co-culture system

| PRJNA736992 | ENA

3D vs . 2D culture of HUASMC

Project description:3D vs . 2D culture of HUASMC

| PRJNA552084 | ENA

Bone marrow stroma confers breast cancer cell resistant to cisplatin treatment

Project description:The transcriptome changes of breast cancer cell SUM1315, with or without co-culture with bone marrow stroma cells, upon cisplatin (CDDP) treatment.

2017-12-27 | GSE97997 | GEO

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