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| Status |
Public on May 22, 2024 |
| Title |
Single-cell multiomics profiling reveals heterogeneous transcriptional programs and microenvironment in Desmoplastic Small Round Cell Tumors [ATAC-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Desmoplastic Small Round Cell Tumor (DSRCT) is a rare, aggressive sarcoma driven by the EWSR1-WT1 chimeric transcription factor. Despite this unique oncogenic driver, DSRCT displays a polyphenotypic differentiation of unknown causality. Using single-cell multi-omics on samples from patients, we find that DSRCT tumor cells cluster into consistant subpopulations with partially overlapping lineage- and metabolism-related transcriptional programs.
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| Overall design |
ATAC-seq was performed in the JN-DSRCT-1 cell line after a 48-hour siRNA-mediated silencing using a control non-targeting siRNA, a CCND1-targeting siRNA, a EWSR1::WT1 siRNA, or in a control condition without transfection.
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| Contributor(s) |
Henon C, Vibert J, Colmet-Daage L, Postel-Vinay S |
| Citation(s) |
38781959 |
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| Submission date |
May 18, 2024 |
| Last update date |
Aug 02, 2024 |
| Contact name |
Clémence Henon |
| E-mail(s) |
clemence.henon@gustaveroussy.fr
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| Organization name |
Gustave Roussy
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| Street address |
114 rue Edouard Vaillant
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| City |
Villejuif |
| ZIP/Postal code |
94800 |
| Country |
France |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (8)
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| GSM8279116 |
JN-DSRCT-1, siCTRL, R2, ATAC |
| GSM8279117 |
JN-DSRCT-1, siCCND1, R1, ATAC |
| GSM8279118 |
JN-DSRCT-1, siCCND1, R2, ATAC |
| GSM8279119 |
JN-DSRCT-1, siEWSR1::WT1, R1, ATAC |
| GSM8279120 |
JN-DSRCT-1, siEWSR1::WT1, R2, ATAC |
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| This SubSeries is part of SuperSeries: |
| GSE263523 |
Single-cell multiomics profiling reveals heterogeneous transcriptional programs and microenvironment in Desmoplastic Small Round Cell Tumors |
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| Relations |
| BioProject |
PRJNA1113159 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE267807_RAW.tar |
7.5 Gb |
(http)(custom) |
TAR (of BIGWIG) |
SRA Run Selector |
| Raw data are available in SRA |
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