Illumina HiSeq 2000 sequencing; ChIP-seq of Stat3 with DNA binding sites mutation in human colon cancer SW480
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
No description
Antigen
NA
Cell type
Cell type Class
Digestive tract
Cell type
SW 480
Primary Tissue
unresolved
Tissue Diagnosis
unresolved
Attributes by original data submitter
Sample
ENA first public
2020-07-06
ENA last update
2019-10-08
ENA-CHECKLIST
ERC000011
External Id
SAMEA6059152
INSDC center alias
3. Department of General Surgery, Shanghai Sixth People’s Hospital East Affiliated to Shanghai University of Medicine & Health Sciences, Shanghai, 201308, China
INSDC center name
3. Department of General Surgery, Shanghai Sixth People’s Hospital East Affiliated to Shanghai University of Medicine & Health Sciences, Shanghai, 201308, China
INSDC first public
2020-07-06T04:03:41Z
INSDC last update
2019-10-08T10:56:39Z
INSDC status
public
Submitter Id
E-MTAB-8417:mutant_1_input
broker name
ArrayExpress
cell line
SW480
cell type
epithelial cell of large intestine
common name
human
developmental stage
adult
disease
colorectal carcinoma
genotype
STAT3 knockout
organism part
colon
sample name
E-MTAB-8417:mutant_1_input
Sequenced DNA Library
library_name
mutant_1_input_s
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
SW480 cells were edited by CRISPR-CAS9 for the residue 400 to 411 (\"NNGSLSAEFKHL\") of Stat3 deletion. 10% whole cell lysates were saved as input after genomic DNA was broken into 200-500 bp by sonication. 1 μg IP grade antibodies of STAT3 were incubated with the rest of the lysate overnight, followed by 2 h protein-A beads incubation at 37 °C for target protein pull down. The STAT3 enriched DNA or input DNA were repaired to 3'-dA overhang and added the ligated adapter. 0.2 ug of pull down DNA sample was submitted to NOVOGENE (Beijing, China) for library generation and sequencing.