|
| Status |
Public on Feb 10, 2023 |
| Title |
4L-SCR_NR2F2 ChIPseq |
| Sample type |
SRA |
| |
|
| Source name |
Melanoma cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: WM239-derived 113/6-4L melanoma cell line
chip antibody: NR2F2 antibody (Active Motif, Cat. 61214)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP-IT High Sensitivity Kit (Active Motif), according the manufacturer recommendations.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Base calling and demultiplexing was performed using Illumina bcl2fastq software.
Reads were aligned to the human genome (build hg19/GRCh37) with Bowtie 2 using local alignment.
Likely PCR duplicates were removed with Picard MarkDuplicates tool.
MACS was utilized to perform peak calling for each replicate.
Genome_build: hg19
Supplementary_files_format_and_content: BED files of peaks
|
| |
|
| 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) |
| GSE102552 |
NR2F2 ChIP-sequencing of melanoma cell lines |
| GSE102554 |
NR2F2 melanoma cellular models |
|
| Relations |
| BioSample |
SAMN07499417 |
| SRA |
SRX3088617 |
