|
Status |
Public on Feb 10, 2023 |
Title |
4L-SCR-replicate C |
Sample type |
SRA |
|
|
Source name |
Melanoma cell line
|
Organism |
Homo sapiens |
Characteristics |
cell type: WM239-derived 113/6-4L melanoma cell line
|
Extracted molecule |
total RNA |
Extraction protocol |
RNAeasy Mini Kit (Qiagen), according to the manufacturer's instructions.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Base calling and demultiplexing was performed using Illumina bcl2fastq software. The sequencing reads were aligned to the human genome using the splice-aware STAR aligner. Likely PCR duplicates were removed with Picard MarkDuplicates tool. Htseq package was utilized to generate counts for each gene. The raw counts were normalized using the DESeq2 R package. Genome_build: hg19 Supplementary_files_format_and_content: CSV files contain raw and normalized counts for all genes and samples.
|
|
|
Submission date |
Aug 11, 2017 |
Last update date |
Feb 10, 2023 |
Contact name |
Igor Dolgalev |
Organization name |
NYU Grossman School of Medicine
|
Street address |
550 1st Ave
|
City |
New York |
State/province |
New York |
ZIP/Postal code |
10016 |
Country |
USA |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE102553 |
RNA-sequencing of NR2F2-isoform 2 melanoma cellular models |
GSE102554 |
NR2F2 melanoma cellular models |
|
Relations |
BioSample |
SAMN07499413 |
SRA |
SRX3088624 |