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| Status |
Public on Nov 04, 2021 |
| Title |
A multi-omic single-cell atlas of human gynecological malignancies |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Tumors show substantial amounts of cellular heterogeneity by forming complex ecosystems of malignant and non-malignant cells. Herein, we present a comprehensive multi-omic cell atlas of matched single-cell transcriptome and single-cell chromatin accessibility profiles spanning over 150,000 cells from 11 human gynecologic tumors. By jointly analyzing these transcriptomic and chromatin accessibility profiles at single-cell resolution, we identify 115,734 total peak-to-gene links representing putative regulatory interactions. We find some of these regulatory interactions explain cell type-specific expression patterns of hallmark cancer pathway regulators such as the mTOR activator RHEB. We also leverage these data to infer differential transcription factor activity, such as ZEB1, across cell type-specific enhancers between two different fractions of the same patient tumor. Our work highlights the importance of precision medicine in the treatment of gynecologic cancers and we show that this resource will deepen our understanding of non-coding genomic regions in the context of tumor biology.
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| Overall design |
Matched single-cell RNA-seq and single-cell ATAC-seq profiling of 11 human tumors collected from the endometrium or ovary.
**The raw data were deposited in dbGaP (phs002340.v1.p1) due to patient privacy concerns**
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| |
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| Contributor(s) |
Regner MJ, Wisniewska K, Franco HL |
| Citation(s) |
34739872 |
| BioProject |
PRJNA699347 |
| Submission date |
Apr 30, 2021 |
| Last update date |
Mar 01, 2022 |
| Contact name |
Hector L Franco |
| E-mail(s) |
hfranco@med.unc.edu
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| Organization name |
UNC Lineberger Cancer Center
|
| Department |
Genetics
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| Lab |
Franco Lab
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| Street address |
120 Mason Farm Rd
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599-7265 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (22)
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