|
| Status |
Public on Jan 24, 2024 |
| Title |
patient,DsRed,no treatment,CMO309,Day 20 |
| Sample type |
SRA |
| |
|
| Source name |
cel line
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: cel line
cell line: #87971
cell type: pAstro
genotype: patient
transcription factor: DsRed
treatment: no treatment
day: Day 20
barcode (10x): CMO309
|
| Treatment protocol |
AMG was added to the medium, when needed
|
| Growth protocol |
pAstros from different genotypes were transduced with the indicated retroviruses; 2 days post transduction, the medium was changed with differentiation medium.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were collected at 20 days post transduction and FACS sorted, each sample into a separate tube. Then, CMO solution was added to the sorted cells, according to manifacturer's protocol (10XGenomics).
Equal number of cells from each condition was added to have a correct cell concentration. Then, ~20000 cells were loaded per lane, and 2 lanes were loaded.
Libraries were prepared according to manifacturer's protocol (10XGenomics).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10XGenomics
|
| Data processing |
Raw data were processed using CellRanger 6.0, according to manifacturer's protocol (10XGenomics).
Assembly: hg28, ensembl98
Supplementary files format and content: tsv file format
|
| |
|
| Submission date |
Nov 17, 2023 |
| Last update date |
Jan 24, 2024 |
| Contact name |
Giacomo Masserdotti |
| E-mail(s) |
giacomo.masserdotti@helmholtz-munich.de
|
| Organization name |
Helmholtz Zentrum
|
| Department |
ISF
|
| Street address |
Groshaderner Strasse 9
|
| City |
Planegg-Martinstied |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE248128 |
Unfolded protein Response is a major hurdle in direct neuronal reprogramming of human astrocytes [scRNA-seq day 20] |
| GSE248129 |
Unfolded protein Response is a major hurdle in direct neuronal reprogramming of human astrocytes |
|
