|
| Status |
Public on Sep 19, 2024 |
| Title |
D425_ev1_ZIC1_mut_constructs_RNA |
| Sample type |
SRA |
| |
|
| Source name |
D425
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: D425
cell type: Group 3 medulloblastoma
genotype: WT
treatment: empty vector overexpression
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rneasy purification kit for extraction of RNA.
NEB Ultra DNA library prep kit for ChIP-Seq (NEB7645), NEB Ultra II Directional mRNA kit for RNA-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
D283_D425_ZIC1_mutant_constructs_RNA-Seq_htseq_counts.txt
|
| Data processing |
RNA-Seq - alignment with STAR, differential expression analysis with DESeq2
Counts were collected with htseq for RNA-Seq
Assembly: hg19 for human, mm10 for mouse
Supplementary files format and content: Raw counts for each sample for each gene
|
| |
|
| Submission date |
Nov 08, 2022 |
| Last update date |
Sep 19, 2024 |
| Contact name |
Michael D Taylor |
| E-mail(s) |
mdt.cns@gmail.com
|
| Organization name |
Hospital for Sick Children
|
| Street address |
686 Bay St.
|
| City |
Toronto |
| State/province |
ON |
| ZIP/Postal code |
M5G 0A4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE217571 |
Effect of ZIC1 on group 3 medulloblastoma cell lines and granule neuron progenitor [RNA-seq] |
| GSE217639 |
Effect of ZIC1 on group 3 medulloblastoma cell lines and granule neuron progenitor |
|
| Relations |
| BioSample |
SAMN31671048 |
| SRA |
SRX18223585 |
