|
| Status |
Public on Oct 25, 2024 |
| Title |
A375, ND1 mtDNA, replicate (mouse) 1 |
| Sample type |
SRA |
| |
|
| Source name |
Subcutaneous tumor grown in flank of NSG mouse
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Subcutaneous tumor grown in flank of NSG mouse
cell line: A375
cell type: melanoma
genotype: ND1 mtDNA
|
| Treatment protocol |
10,000 A375 cells were injected subcutaneously into the flank of an NSG mouse and allowed to grow until 20-25mm in diameter.
|
| Growth protocol |
Animals were maintained on a standard chow diet, ad libitum, under a standard 12 hr light-dark cycle.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA extraction was carried out from frozen tissue using the RNEasy kit (Qiagen) following manufacturer's instructions.
Libraries were constructed using Lexogen's QuantSeq 3' mRNA-Seq Library Prep Kit FWD following manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
19_ND1_S7
|
| Data processing |
Reads were trimmed (TrimGalore v.0.6.0), aligned with HISAT2 to the GRCH38 reference genome.
Assembly: GRCH38
Supplementary files format and content: Excel file reports raw counts for genes in each sample.
|
| |
|
| Submission date |
Aug 29, 2024 |
| Last update date |
Oct 25, 2024 |
| Contact name |
Prashant Mishra |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Texas Southwestern Medical Center
|
| Street address |
5323 Harry Hines Blvd
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (1) |
| GSE276027 |
Pathogenic mtDNA mutations inhibit melanoma metastasis |
|
| Relations |
| BioSample |
SAMN43410735 |
| SRA |
SRX25903267 |
