|
| Status |
Public on Jan 26, 2018 |
| Title |
NBL-WN_input |
| Sample type |
SRA |
| |
|
| Source name |
NBl-WN cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: NBL-WN
|
| Treatment protocol |
1% O2 (hypoxia) or 20% O2 (normoxia) for 48 hours
|
| Growth protocol |
DMEM with 10% FBS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
hMe-SEAL followed previously described methods (Song et al., Nature Biotechnology, 2011)
Standard Illumina protocols
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
input
Please note that the 'WCP_Peaks_control_afterfiting_all.wig.gz' and 'WHP_Peaks_control_afterfiting_all.wig.gz' files are the corresponding input files for the NBL-WN_Normoxia_hMe-SEAL (WCP_Peaks_treat_afterfiting_all.wig.gz) and NBL-WN_Hypoxia_hMe-SEAL (WHP_Peaks_treat_afterfiting_all.wig.gz) processed data, respectively.
|
| Data processing |
DNA reads were aligned using BWA aligner.
Peaks were called using MACS1.4
Genome_build: hg19
Supplementary_files_format_and_content: wig file
|
| |
|
| Submission date |
Jan 25, 2018 |
| Last update date |
Jan 26, 2018 |
| Contact name |
Christopher Mariani |
| E-mail(s) |
christopher.mariani@gmail.com
|
| Organization name |
University of Chicago
|
| Street address |
900 E 57 St
|
| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60637 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE55391 |
TET1-mediated hydroxymethylation facilitates hypoxic gene induction in neuroblastoma |
|
| Relations |
| BioSample |
SAMN08395448 |
| SRA |
SRX3599596 |
