Illumina HiSeq 2500 paired end sequencing; ChIP-Seq of BCL11A and SOX2 in lung squamous cell carcinoma (LUSC) LK-2 cell line with or without BCL11A knockdown
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
No description
Antigen
NA
Cell type
Cell type Class
Lung
Cell type
LK-2
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma Squamous Cell
Attributes by original data submitter
Sample
ENA first public
2018-07-05
ENA last update
2018-07-03
ENA-CHECKLIST
ERC000011
External Id
SAMEA4776358
INSDC center alias
UNIVERSITY OF CAMBRIDGE
INSDC center name
UNIVERSITY OF CAMBRIDGE
INSDC first public
2018-07-05T17:03:08Z
INSDC last update
2018-07-03T14:40:41Z
INSDC status
public
Submitter Id
E-MTAB-6958:LK2_BCL11A-Sh1_SOX2
broker name
ArrayExpress
cell line
LK-2
common name
human
disease
squamous cell lung carcinoma
organism part
lung
sample name
E-MTAB-6958:LK2_BCL11A-Sh1_SOX2
Sequenced DNA Library
library_name
LK2_BCL11A-Sh1_SOX2_p
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
LK-2 cells were cultured in RPMI (gibco) supplemented with 10% fetal bovine serum and 1% Penicillin/Streptomycin. ChIP-Seq was done exactly as described in (Schmidt, D., et al. ChIP-seq: Using high-throughput sequencing to discover protein–DNA interactions. Methods 48, 240-248 (2009)). Briefly 2 x 15cm plates per cell line were formaldehyde crosslinked, nuclear fraction was isolated and chromatin sonicated using Bioruptor Pico (Diagenode). Libraries were produced at the Wellcome Trust Sanger Institute sequencing facility. Each library was split into two and run on separate lanes