|
| Status |
Public on Dec 10, 2019 |
| Title |
T-T2.3 |
| Sample type |
SRA |
| |
|
| Source name |
induced glioblastoma cells
|
| Organism |
Homo sapiens |
| Characteristics |
original cell line: CVB - iPSC (Coriell GM25430)
genotype: TP53 KO / PDGFRA mut
passage: 0
|
| Biomaterial provider |
Coriell Cell Repositories https://www.coriell.org/0/Sections/Search/Sample_Detail.aspx?Ref=GM25430&Product=CC
|
| Treatment protocol |
Sphere cells were dissociated using accutase. Tumor cells were obtained through trypsin digestion and mechanical dissociation of the tumors.
|
| Growth protocol |
Sphere cells were cultured in DMEM/F12 with EGF and bFGF. Tumor cells were directly obtained from orthotopic in vivo tumors in mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
10X chromium chemistry V2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Tumor cells from the secondary induced glioblatoma (TP53 KO, PDGFRA mut)
|
| Data processing |
alignment, cell barcode processing, umis processing, abundance measurements: cellranger count (version 2.1.1)
Genome_build: hg19
Supplementary_files_format_and_content: XXX_summary.html: summary HTML file containing summary metrics and automated secondary analysis results
Supplementary_files_format_and_content: XXX_filtered_gene_bc_matrices_h5.h5: gene-barcode matrix in sparse h5 format
|
| |
|
| Submission date |
Jun 28, 2019 |
| Last update date |
Jan 29, 2020 |
| Contact name |
Gene Yeo |
| E-mail(s) |
geneyeo@ucsd.edu
|
| Organization name |
UCSD
|
| Street address |
2880 Torrey Pines Scenic Dr. Room 3805/Yeo Lab
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE133509 |
Cancer avatars derived from genetically engineered pluripotent stem cells allow for longitudinal assessment of tumor development |
|
| Relations |
| BioSample |
SAMN12161959 |
| SRA |
SRX6375065 |
