|
| Status |
Public on Feb 22, 2016 |
| Title |
SIL-ALL-input |
| Sample type |
SRA |
| |
|
| Source name |
SIL-ALL
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: leukemia cell line SIL-ALL
chip antibody: input
|
| Growth protocol |
Human leukemia cell lines were maintained in IMDM supplemented with 10% FBS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Library preapred according to Illumina's instructions
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
FastQC (V 0.10.1) was used to check the data quality. To obatin the peaks, the first 3 bases of the reads were trimmed based on the FastQC results
Samples were aligned to hg19 using bowtie aligner (Version 1.1.1), with default parameters. Only uniquely aligned reads were kept.
Peaks were called used MACS (V1.4.2) with default parameters with p-values < 1e-5.
Genome_build: hg19
Supplementary_files_format_and_content: Peak files were generated by MACS in BED format.
|
| |
|
| Submission date |
Jul 08, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Alexandros Tzatsos |
| E-mail(s) |
atzatsos@gwu.edu
|
| Phone |
2029949104
|
| Organization name |
George Washington University
|
| Department |
GW Cancer Center
|
| Lab |
Cancer Epigenetics Laboratory
|
| Street address |
800 22nd St NW SEH 8850
|
| City |
Washington |
| State/province |
DC |
| ZIP/Postal code |
20052 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE70624 |
Role of the histone demethylase KDM2B in hematopoietic homeostasis and malignancies [ChIP-seq] |
| GSE70729 |
Role of the histone demethylase KDM2B in hematopoietic homeostasis and malignancies |
|
| Relations |
| BioSample |
SAMN03846962 |
| SRA |
SRX1085074 |
