GSM3075373: LN95 ATAC seq rep1; Homo sapiens; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Prostate
Cell type
LN95
NA
NA
Attributes by original data submitter
Sample
source_name
prostate cancer cells
cell line
LN95
cancer
Prostate adenocarcinoma
chip andtibody
N/A
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Cells were treated with DNase at a final concentration of 50 U/ml for 30 min. Then cells were washed, trypsinized and resuspended in cold PBS. 50,000 cells were resuspended in cold ATAC-seq resuspension buffer (10 mM Tris-HCl pH 7.4, 10 mM NaCl, and 3 mM MgCl2). Cell nuclei were then prepared by incubation in 50 μl of ATAC-seq resuspendsion buffer containing 0.1% NP40, 0.1% Tween-20, and 0.01% digitonin on ice for 3 min. After centrifugation, nuclei were resuspended in 50 μl of transposition mix (25 μl 2× TD buffer ,2.5 μl Nextera Tn5 transposase (Illuminar), 16.5 μl PBS, 0.5 μl 1% digitonin, 0.5 μl 10% Tween-20, and 5 μl water), and incubated at 37 °C for 30 min in a thermomixer with shaking at 1,000 rpm. Transposed fragments were then purified with a Zymo DNA Clean and Concentrator-5 Kit. All libraries showed sufficient amplification after the 5 pre-amplification cycles and quantified using the KAPA Library Quantification Kit.