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Status |
Public on Apr 24, 2021 |
Title |
Single-cell RNA-seq of sorted CD8+ T cells from B16 melanoma tumors |
Organism |
Mus musculus |
Experiment type |
Expression profiling by high throughput sequencing
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Summary |
The response of naive CD8 T cells to acute infections results in the generation of defined yet heterogeneous pools of effector and memory cells. In contrast, the complexity of tumor infiltrating CD8 T cell states is still not fully elucidated. To delineate the landscape of tumor infiltrating CD8 T cells in an unbiased manner, we performed single-cell (full-length) RNA-Seq of CD8 T cells infiltrating mouse B16 melanomas. Our analysis of cell heterogeneity revealed the presence of multiple distinct CD8 T cell subtypes including exhausted, terminal effector, naive and memory-like CD8 T cells, as well as novel intermediate states. TCR reconstruction and pseudotime ordering enabled us to follow differentiation of single clones and suggested distinct trajectories towards T-cell exhaustion.
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Overall design |
single-cell (full-length) RNA-Seq of CD8 T cells infiltrating mouse B16 melanomas Please note that [1] there are 192 samples included in the study, and the processed data was generated from the 135 quality filtered samples (filetering parameters are provided in the data processing steps) [2] The cell subtype information for each sample is described and provided in the associated publication.
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Contributor(s) |
Singer M |
Citation missing |
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Submission date |
Apr 24, 2018 |
Last update date |
Apr 24, 2021 |
Contact name |
Aviv Regev |
E-mail(s) |
nmdespot@gmail.com
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Organization name |
Broad Institute
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Lab |
Regev Lab
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Street address |
415 MAIN ST
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City |
CAMBRIDGE |
State/province |
MASSACHUSETTS |
ZIP/Postal code |
02142-1027 |
Country |
USA |
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Platforms (1) |
GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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Samples (192)
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Relations |
BioProject |
PRJNA453200 |
SRA |
SRP142490 |