|
| Status |
Public on Nov 15, 2022 |
| Title |
Single cell RNA-seq from primary ccRCC-patient-derived cell cultures on the 10X genomics platform |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
HIF-metagene identifies hypoxic or constitutive HIF activation in scRNA-seq. Hypoxic normal cells have higher HIF-metagene scores than normoxic normal cells, and ccRCC tumour cells (harbouring VHL inactivation) have higher HIF-metagene score than normal cells.
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| |
|
| Overall design |
Assess single cell HIF-metagene activation in primary cultures in hypoxic conditions and upon VHL inactivation
>>>Submitter states that raw data are not available due to patient privacy concerns<<<
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| |
|
| Contributor(s) |
Lombardi O, Li R, Mole DR |
| Citation(s) |
36384128 |
| |
| Submission date |
Apr 05, 2022 |
| Last update date |
Jun 13, 2024 |
| Contact name |
David Robert Mole |
| E-mail(s) |
david.mole@ndm.ox.ac.uk
|
| Phone |
0044 (0)1865 613956
|
| Organization name |
University of Oxford
|
| Department |
Nuffield Department of Medicine
|
| Lab |
NDM Research Building
|
| Street address |
Roosevelt Drive, Headington
|
| City |
Oxford |
| ZIP/Postal code |
OX3 7FZ |
| Country |
United Kingdom |
| |
|
| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
|
| Samples (10)
|
| GSM6022042 |
normal cells in normoxia (gene expression) |
| GSM6022043 |
normal cells in hypoxia (gene expression) |
| GSM6022044 |
tumour cells from tumour region 1 (gene expression) |
| GSM6022045 |
tumour cells from tumour region 2 (gene expression) |
| GSM6022046 |
normal cells in normoxia, cultured in low serum conditions (gene expression) |
| GSM6022047 |
normal cells in normoxia (hashtag oligo) |
| GSM6022048 |
normal cells in hypoxia (hashtag oligo) |
| GSM6022049 |
tumour cells from tumour region 1 (hashtag oligo) |
| GSM6022050 |
tumour cells from tumour region 2 (hashtag oligo) |
| GSM6022051 |
normal cells in normoxia, cultured in low serum conditions (hashtag oligo) |
|
| Relations |
| BioProject |
PRJNA823679 |
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