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| Status |
Public on Sep 24, 2024 |
| Title |
Single Nucleus DNA Sequencing of Flow Sorted Archived Frozen and Formalin Fixed Paraffin Embedded Solid Tumors |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by array
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| Summary |
We applied DNA content based flow cytometry methods to interrogate the genomes of clinical samples from 8 patients with ovarian cancer. These included 6 high grade serous ovarian carcinomas, a low grade serous carcinoma, and an endometriod carcinoma. Archived samples obtained from surgical resections from a University of California San Francisco (UCSF) tissue bank. Notably for this study we distinguished and sorted diploid and aneuploid tumors. We then profiled the the whole genome copy number for each sample. These data were used to provide standards for single cell analyses of the same tissues including FFPE samples.
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| Overall design |
We applied DNA content based flow sorting to isolate the nuclei of clonal populations from ovarian carcinoma biopsies. We coupled this strategy with oligonucleotide array CGH (aCGH) thereby obtaining high definition genomic profiles of clonal populations from each tumor.
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| Contributor(s) |
Zhou Y, Chen X, Chapman JS, Barrett MT |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| UH3 CA238926 |
HRD-IA signatures in pancreatic ductal adenocarcinoma |
Mayo Clinic Arizona |
Michael T Barrett |
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| |
| Submission date |
Jun 03, 2024 |
| Last update date |
Sep 25, 2024 |
| Contact name |
Michael Thomas Barrett |
| E-mail(s) |
barrett.michael@mayo.edu
|
| Phone |
480-301-6736
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| Organization name |
Mayo Clinic Arizona
|
| Department |
Molecular Pharmacology and Experimental Therapeutics
|
| Street address |
13400 East Shea Boulevard
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| City |
Scottsdale |
| State/province |
AZ |
| ZIP/Postal code |
85259 |
| Country |
USA |
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| Platforms (1) |
| GPL9777 |
Agilent-021850 SurePrint G3 Human CGH Microarray (Feature Number version) |
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| Samples (8)
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| GSM8302703 |
High grade serous ovarian carcinoma FF1 |
| GSM8302704 |
High grade serous ovarian carcinoma FF2 |
| GSM8302705 |
Low grade serous ovarian carcinoma FF3 |
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| Relations |
| BioProject |
PRJNA1119467 |
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