|
| Status |
Public on Mar 01, 2023 |
| Title |
ChIPSeq_CTCF_293T_WT |
| Sample type |
SRA |
| |
|
| Source name |
HEK-293T
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: human emborynic kidney
genotype: wildtype
antibody: CTCF (Millipore, 07-729)
|
| Growth protocol |
Human endometrial HEC-1-B cells (ATCC) were cultured in MEM medium (Hyclone), supplemented with 10% (v/v) FBS (Gibco), 2 mM glutamine (Gibco), 1 mM sodium pyruvate (Sigma), and 1× penicillin-streptomycin (Gibco). HEK-293T Cells were cultured in DMEM medium (Hyclone),supplemented with 10% (v/v) FBS (Gibco)and 1× penicillin-streptomycin (Gibco).Cells were maintained at 37 °C in a humidified incubator containing 5% (v/v) of CO2, and were passaged every three days.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
Libraries were prepared according to NEB's instructions accompanying the DNA Sample Kit (#E7645).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
wildtype
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence and then aligned to the reference human genome (GRCh37/hg19) using the Bowtie program (version 1).
Peaks were called using MACS program (version 1.4.2).
Genome_build: hg19
Supplementary_files_format_and_content: bed files: enrichments for every peak called by MACS.
|
| |
|
| Submission date |
Mar 20, 2020 |
| Last update date |
Mar 01, 2023 |
| Contact name |
yonghu wu |
| E-mail(s) |
[email protected]
|
| Phone |
+8615921739862
|
| Organization name |
Shanghai JiaoTong University
|
| Street address |
800# Dongchuan Road
|
| City |
Shanghai |
| ZIP/Postal code |
200240 |
| Country |
China |
| |
|
| Platform ID |
GPL20795 |
| Series (2) |
| GSE147279 |
Three-dimensional genome architectural CCCTC-binding factor makes choice in duplicated enhancers at Pcdhα locus. [ChIP-seq II] |
| GSE147286 |
Three-dimensional genome architectural CCCTC-binding factor makes choice in duplicated enhancers at Pcdhα locus |
|
| Relations |
| BioSample |
SAMN14414739 |
| SRA |
SRX7959853 |
