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| Status |
Public on Aug 07, 2023 |
| Title |
TooManyPeaks identifies drug-resistant-specific regulatory elements from single-cell leukemic epigenomes [ATAC-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Purpose: To characterize epigenomic heterogeneity in GSI-responsive and -resistant T-ALL cells
Method: We generated GSI-resistant T-ALL DND41 cells and profiled their epigenome using single-cell RNA sequencing.
Result: We report here the presence of resistant-like subpopulation in drug naïve DND41 T-ALL cells.
Conclusion: While other popular scRNA-seq clustering algorithms failed, TooManyPeaks, a suite of clustering and visualization algorithm developed in our lab, could identify rare resistant-like DND41 T-ALL cells.
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| Overall design |
Single-cell ATAC-seq was performed on cells acquiring resistance to a gamma secretase inhibitor (GSI) after long-term treatment of Notch-mutated T-cell acute lymphoblastic leukemia (T-ALL) DND41 cells.
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| Contributor(s) |
Zhou Y, Faryabi RB |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Aug 08, 2020 |
| Last update date |
Aug 07, 2023 |
| Contact name |
Robert Babak Faryabi |
| E-mail(s) |
[email protected]
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| Phone |
215-573-8220
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| Organization name |
University of Pennsylvania
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| Department |
Pathology
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| Lab |
Faryabi Lab
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| Street address |
Room 553 BRB II/III, 421 Curie Boulevard
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| City |
Philadelphia |
| State/province |
Pennsylvania |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platforms (1) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA656191 |
| SRA |
SRP276947 |
