|
| Status |
Public on Sep 20, 2019 |
| Title |
Persister polysome input |
| Sample type |
SRA |
| |
|
| Source name |
A375 melanoma
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: melanoma
antibody: m6A
|
| Treatment protocol |
One day after spliting A375 cells were treated for 3 days with DMSO or Vemurafenib and combimetinib
|
| Growth protocol |
A375 melanoma cells were cultured according to the ATCC protocol
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA and polysomal associated RNA was performed according to the manufacturer's instructions. The total RNA was then sent to LC Science, Texas for the m6A-seq
RNA libraries were prepared for sequencing using standard Illumina protocols
m6A antibody immunoprecipitation followed by high-throughput RNA sequencing
|
| |
|
| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
messenger RNA
|
| Data processing |
Illumina Casava1.4 software used for basecalling.
m6A-seq reads were aligned to the hg38 genome assembly using EasyAlign
Quanlity control was performed and visualized with multiQC
Genome_build: hg38
Supplementary_files_format_and_content: Aligned Bam file were generated for m6A peak distribution analysis
|
| |
|
| Submission date |
Sep 19, 2019 |
| Last update date |
Sep 20, 2019 |
| Contact name |
Shensi SHEN |
| E-mail(s) |
[email protected]
|
| Organization name |
Gustave Roussy Institute
|
| Street address |
114 Rue Edouard Vaillant
|
| City |
Villejuif |
| ZIP/Postal code |
94805 |
| Country |
France |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE137725 |
m6A-seq of melanoma parental and persister cells |
| GSE137726 |
A375 melanoma parental and persister cells |
|
| Relations |
| BioSample |
SAMN12787922 |
| SRA |
SRX6873305 |
