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Single cell sequencing of Tri-PyMT cells

ABSTRACT: Single cell sequencing of Tri-PyMT cells

PROVIDER: PRJNA521723 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8556680_1.fastq.gz	Fastqsanger.gz
	SRR8556680_2.fastq.gz	Fastqsanger.gz
	SRR8556681_1.fastq.gz	Fastqsanger.gz
	SRR8556681_2.fastq.gz	Fastqsanger.gz
	SRR8556682_1.fastq.gz	Fastqsanger.gz

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Single cell sequencing of Tri-PyMT cells

Project description:To study the contribution of epithelial-to-mesenchymal transition (EMT) in tumor metastasis, we established an EMT lineage tracing model in a multiple-transgenic mouse (MMTV-PyMT/Fsp1-Cre/Rosa26mT/mG, Tri-PyMT). In this model, breast tumor cells that underwent EMT would irreversibly switch their expression of the fluorescent marker from RFP+ to GFP+ due to the mesenchymal specific Cre expression. Surprisingly, we found that metastatic tumor cells did not convert from RFP+ to GFP+. Lung metastases were predominantly composed of RFP+ tumor cells persistently exhibiting epithelial phenotypes. These findings challenge the concept that EMT is required for metastasis, and have attracted vigorous discussion about its true contributions to metastasis. One of the major concerns with the EMT lineage tracing model is that expression of GFP only indicates the complete EMT transition. The partial-EMT programming, a novel concept describing tumor cells exhibiting both epithelial and mesenchymal features, could possibly fail to launch the Fsp1-Cre-mediated fluorescent marker switch. To address this concern, we evaluated the EMT status of Tri-PyMT cells on the single cell level by performing single cell RNA-sequencing (scRNA-seq). We found that the expression of epithelial markers (i.e. Epcam and Krt18) and mesenchymal markers (i.e. Vim and S110a4) were largely confined to RFP+ and GFP+ subpopulations, respectively. Based on the differentially expressed EMT related genes, we observed an EMT spectrum in which the low EMT score end was enriched with RFP+ cells, whereas the high EMT score end was enriched with GFP+ cells. Indeed, the fluorescent marker switch in Tri-PyMT cells predicted their EMT status with high specificity and sensitivity. Tri-PyMT cells which were derived from the primary breast tumor of triple transgenic mouse (MMTV-PyMT:Fsp1-cre:Rosa26mT/mG) were sorted into RFP+ or GFP+ populations by FACS and subjected for Drop-seq analysis.

2022-02-01 | GSE126374 | GEO

Single cell sequencing of Tri-PyMT cells [10X Genomics]

Project description:Single cell sequencing of Tri-PyMT cells [10X Genomics]

| PRJNA739681 | ENA

Single cell sequencing of GFP+ Tri-PyMT cells from lung metastasis

Project description:Single cell sequencing of GFP+ Tri-PyMT cells from lung metastasis

| PRJNA739682 | ENA

Single cell RNA sequencing on PyMT mammary gland tumor cells

Project description:We labeled PyMT control cells versus PyMT-GPx2 KD with GFP in vitro and then injected into mammary fat pad of mice for incubating 45 days. We then generated single cell suspension by FACS sorting from PyMT-control, GPx2 KD. 10X Genomics was used to make cDNA library. We then sequenced the samples with Illumina high throughput sequencing.

2022-01-13 | GSE152368 | GEO

Single cell RNA sequencing on PyMT mammary gland tumor cells

Project description:Single cell RNA sequencing on PyMT mammary gland tumor cells

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Single-cell RNA-seq of Ecad positive PyMT bulk tumor cells

Project description:In this study we studied the presence of tumor cells that underwent epithelial-to-mesenchymal transition within polyoma middle T antigen (PyMT) breast tumors. For this we dissociated tumors and isolated Ecad positive tumor cells by FACS sorting. We confirmed that PyMT tumors contain a small set of tumor cells that have undergone EMT in the primary tumor and that E-cadherin can be used as a marker on single cell level for mesenchymal status in this model. We isolated primary tumors from mice, dissociated the tumors and FACS-sorted for single Ecad positive tumor cells, after this we performed single cell sequencing of the cells.

2016-03-09 | E-GEOD-77107 | biostudies-arrayexpress

Single cell sequencing of CD11c-selected cells from the TME of PyMT C57BL/6N mice

Project description:We performed single-cell sequencing on CD11c-selected cells from 20 week old PyMT mice

2019-07-26 | GSE134904 | GEO

Single cell sequencing of Tri-PyMT cells [10X Genomics]

Project description:Using an EMT lineage-tracing model, we identified tumor cells in the transitioning phases of both EMT and MET. Further analyses revealed that the ribosome biogenesis (RiBi) pathway was specifically elevated in these transitioning cells, regardless of their destined phenotypical fates.

2022-09-01 | GSE178577 | GEO

Single-cell RNA profiling of mammary gland tumours in MMTV-PyMT mouse model of breast cancer.

Project description:Here, we use single cell sequencing to delineate the heterogeneity of tumours from the genetically engineered MMTV-PyMT mouse model of breast cancer (MMTV-PyMT::K14Cre::Rosa-tdTomato mice).

2024-05-08 | GSE159478 | GEO

Single cell RNA sequencing on PyMT mammary gland primary tumor and lung metastases

Project description:Using scRNA-seq of the PyMT/GPx2 KD versus the PyMT control tumor model, we identified an overlap in cell clustering involving six luminal-like clusters and one basal/mesenchymal-like cluster (cluster 3). Similarly, scRNA-seq of lung metastases derived from the GPx2 KD tumor unraveled several luminal-like clusters and one mesenchymal-like cluster (M-cluster) which was highly homologous to primary tumor cluster 3.

2023-04-29 | GSE215394 | GEO

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