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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 22, 2024 |
| Title |
Stem-cell states converge in multi-stage cutaneous squamous cell carcinoma development [scRNA-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Stem cells play a critical role in cancer development by contributing to cell heterogeneity, lineage plasticity, and drug resistance. We created gene expression networks from hundreds of mouse normal and tumor samples, and integrated these with lineage tracing and single-cell RNA-seq, to identify convergence of cell states in pre-malignant tumor cells expressing markers of lineage plasticity and drug resistance. Two of these cell states representing multilineage plasticity or proliferation were inversely correlated, suggesting a mutually exclusive relationship. Treatment of carcinomas in vivo with chemotherapy repressed the proliferative state and activated multilineage plasticity, while inhibition of differentiation repressed plasticity and potentiated responses to cell-cycle inhibitors. Manipulation of this cell state transition point may provide a rich source of potential combinatorial targets for cancer therapy. These scRNAseq data encompass normal skin, papilloma, and squamous cell cacinoma samples.
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| Overall design |
To investigate cell state identities of individual cells in mouse squamous cell carcinomas as they grow from normal skin, to papilloma, to carcinoma, and are then treated with cisplatin. These cancers were initiated with DMBA and promoted with TPA. Several samples were lineage traced using Lgr6-EGFP-CreERT2 mice carrying the Rosa26-LSL-Tomato reporter (Lgr6eGFPtdTomato) lineage tracing system to track Lgr6+ cells (GRF+) and their progeny (tomato).
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| Contributor(s) |
Kandyba E, Wu D, Delrosario R |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Mar 16, 2024 |
| Last update date |
Aug 01, 2024 |
| Contact name |
MARK ALAN TAYLOR |
| E-mail(s) |
mrktaylor531@gmail.com
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| Organization name |
UCSF
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| Department |
Hellen Diller Family Comprehensive Cancer Center
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| Lab |
Balmain
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| Street address |
1450 3rd St
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94158 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (28)
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| GSM8150922 |
FACS sorted, Lgr6+ cells (GFP+) cells from lineage-traced squamous cell carcinoma, scRNAseq |
| GSM8150923 |
FACS sorted, Lgr6 derived progeny cells (tomato+) cells from lineage-traced squamous cell carcinoma, scRNAseq |
| GSM8150924 |
FACS sorted, global cell population from lineage traced SCC, contains Lgr6GFP+ and Tomato+ progeny cells, scRNAseq |
| GSM8150925 |
FACS sorted, Lgr6+ cells (GFP+) cells from lineage-traced papilloma, scRNAseq |
| GSM8150926 |
FACS sorted, Lgr6 derived progeny cells (tomato+) cells from lineage-traced papilloma, scRNAseq |
| GSM8150927 |
FACS sorted, global cell population from lineage traced papillomas, contain Lgr6GFP+ and Tomato+ progeny cells, scRNAseq |
| GSM8150928 |
FACS sorted, Lgr6+ cells (GFP+) cells from lineage-traced normal skin adjacent to tumor, scRNAseq |
| GSM8150929 |
FACS sorted, Lgr6 derived progeny cells (tomato+) cells from lineage-traced normal skin adjacent to tumor, scRNAseq |
| GSM8150930 |
FACS sorted, global cell population from lineage-traced normal back skin, scRNAseq |
| GSM8150931 |
FACS sorted, Lgr6+ cells (GFP+) cells from lineage-traced normal back skin, scRNAseq |
| GSM8150932 |
FACS sorted, Lgr6 derived progeny cells (tomato+) from lineage-traced normal back skin, scRNAseq |
| GSM8150933 |
FACS sorted, global cell population from normal back skin (non-lineage traced), scRNAseq |
| GSM8150934 |
Squamous cell carcinoma 1 treated with control vehicle, scRNAseq |
| GSM8150935 |
Squamous cell carcinoma 2 treated with control vehicle, scRNAseq |
| GSM8150936 |
Squamous cell carcinoma 1 treated with cisplatin, scRNAseq |
| GSM8150937 |
Squamous cell carcinoma 2 treated with cisplatin, scRNAseq |
| GSM8150938 |
Squamous cell carcinoma 3 treated with control vehicle, scRNAseq |
| GSM8150939 |
Squamous cell carcinoma 4 treated with control vehicle, scRNAseq |
| GSM8150940 |
Squamous cell carcinoma 3 treated with cisplatin, scRNAseq |
| GSM8150941 |
Squamous cell carcinoma 4 treated with cisplatin, scRNAseq |
| GSM8150942 |
Papilloma 1, scRNAseq |
| GSM8150943 |
Papilloma 2, scRNAseq |
| GSM8150944 |
Papilloma 3, scRNAseq |
| GSM8150945 |
Papilloma 4, scRNAseq |
| GSM8150946 |
Progressing papilloma (early carcinoma) 5, scRNAseq |
| GSM8150947 |
Progressing papilloma (early carcinoma) 6, scRNAseq |
| GSM8150948 |
Progressing papilloma (early carcinoma) 7, scRNAseq |
| GSM8150949 |
Progressing papilloma (early carcinoma) 8, scRNAseq |
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| Relations |
| BioProject |
PRJNA1088744 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE261766_chemotherapy_additional_samples.RDS.gz |
981.4 Mb |
(ftp)(http) |
RDS |
| GSE261766_integrated_corrected_cds_v3.RDS.gz |
472.7 Mb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
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