|
| Status |
Public on Jun 06, 2021 |
| Title |
NRAS-PDX2-R4 |
| Sample type |
SRA |
| |
|
| Source name |
Human melanoma PDX
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Human melanoma PDX
phenotype: MEKi resistant
|
| Extracted molecule |
total RNA |
| Extraction protocol |
QIAGEN All Prep DNA/RNA Mini Kit and Ambion mirVana miRNA Isolation Kit
KAPA RNA-Seq Library Preparation Kits
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The reads are first mapped to Grch38 using HISAT2
Gene level raw read counts are quantified using htseq-count
Ensemble ID to HUGO gene mapping using biomaRt R package
Using log2 counts per million (CPM) as normalized gene expression values
Genome_build: GRCh38
Supplementary_files_format_and_content: Gene level normalized expression matrix
|
| |
|
| Submission date |
Sep 27, 2020 |
| Last update date |
Jun 06, 2021 |
| Contact name |
Sixue Liu |
| E-mail(s) |
sxliu0130@gmail.com
|
| Organization name |
UCLA
|
| Department |
Medicine
|
| Street address |
10833 Le Conte Avenue
|
| City |
LOS ANGELES |
| State/province |
California |
| ZIP/Postal code |
90064 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE158607 |
Durable Suppression of Acquired MEK Inhibitor Resistance in Cancer by Sequestering MEK from ERK and Promoting Anti-Tumor T-cell Immunity [RNA-seq] |
| GSE158610 |
Durable Suppression of Acquired MEK Inhibitor Resistance in Cancer by Sequestering MEK from ERK and Promoting Anti-Tumor T-cell Immunity |
|
| Relations |
| BioSample |
SAMN16275757 |
| SRA |
SRX9199268 |
