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| Status |
Public on Jun 01, 2020 |
| Title |
Single cell analysis of primary prostate human epithelial organoids grown in vehicle or 1,25D to day 8 and day 14 |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Primary prostate epithelial cells derived from a single patient were grown as organoids in vehicle or 10nM 1,25D (vitamin D). At day 8 and day 14 of culture, organoids were dissociated to single cells, and collected & prepped for RNA-seq using the 10x Genomics Chromium Genome Reagent kit v3 Chemistry. ~5,000 cells were collected from each sample and sequenced at a depth of ~50,000 genes per cells on a 2x150nt lane in a NovaSeq 6000. CellRanger alignment was performed to produce the RAW data files.
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| Overall design |
Four samples: organoids grown to day 8 and day 14 in vehicle or 1,25D
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| Contributor(s) |
McCray T, Nonn L |
| Citation(s) |
33458620 |
| Submission date |
Dec 21, 2019 |
| Last update date |
Jan 19, 2021 |
| Contact name |
Larisa Nonn |
| E-mail(s) |
lnonn@uic.edu
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| Phone |
3129960194
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| Organization name |
University of Illinois at Chicago
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| Department |
Pathology
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| Street address |
840 S. Wood St, MC847
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| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60612 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA597151 |
| SRA |
SRP238486 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE142489_RAW.tar |
332.7 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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