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| Status |
Public on Sep 09, 2020 |
| Title |
Single-cell analysis of tumor progression reveals the function, structure, and evolution of cancer archetypes |
| Organism |
Danio rerio |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The classic cancer evolution model posits that driver mutations sweep the population sequentially as the complete set of hallmarks are assembled by the neoplastic clone. However, recent work has challenged this model revealing that most tumors contain highly complex dynamics with genetic diversity reflecting distinct clonal architectures. The functional and phenotypic heterogeneity also has been shown to have a crucial influence on the fate of the tumor5–10. However, it is not well understood how distinct tumor clonal populations coexist and function. Here, we study tumor architecture at the level of individual cells by sampling a zebrafish melanoma tumor over time and space. We found that cancer transcriptional programs can be classified to three archetypes, each exploiting the existing neural crest, mature melanocytes, and stress modules, and distinct intra-tumor locations. Strikingly, these archetypes are conserved in human melanoma. Further, we found that the cancer cells are comprised of two distinct clones, where one expresses a unique archetype. Over time, we found that the cells of this clone adapt by exhibiting a more similar profile to the corresponding archetype.
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| Overall design |
Single-cell RNA sequencing of zebrafish tumor cells from 2 zebrafish at multiple time points.
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| Web link |
https://doi.org/10.1016/j.cels.2020.08.018
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| Contributor(s) |
Baron M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
May 31, 2018 |
| Last update date |
Sep 09, 2020 |
| Contact name |
Maayan Baron |
| E-mail(s) |
Maayan.Baron@nyumc.org
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| Organization name |
NYU
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| Lab |
Yanai
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| Street address |
435 E. 30th Street, 8th Floor
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| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10016 |
| Country |
USA |
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| Platforms (1) |
| GPL20828 |
Illumina NextSeq 500 (Danio rerio) |
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| Samples (14)
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| GSM3167480 |
ZF1,tumor 1,time point 4 |
| GSM3167481 |
ZF1,tumor 2,time point 1 |
| GSM3167482 |
ZF1,tumor 2,time point 2 |
| GSM3167483 |
ZF1,tumor 2,time point 3 |
| GSM3167484 |
ZF2, time point 1 |
| GSM3167485 |
ZF2, time point 2 |
| GSM3167486 |
ZF3, ST |
| GSM3167487 |
cell line A, cultured |
| GSM3167488 |
cell line A, fish |
| GSM3167489 |
cell line B, cultured |
| GSM3167490 |
cell line B, fish |
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| Relations |
| BioProject |
PRJNA473915 |
| SRA |
SRP149420 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE115140_RAW.tar |
21.0 Mb |
(http)(custom) |
TAR (of CSV, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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