GSM3346715: 806 S4 RREB1 KO Input; Mus musculus; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Input control
Antigen
Input control
Cell type
Cell type Class
Pancreas
Cell type
Pancreatic ductal adenocarcinoma
NA
NA
Attributes by original data submitter
Sample
source_name
pancreatic ductal adenocarcinoma
cell line
KSIC_806
treatment
SB505124
time
6h
chip antibody
none
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total RNA was collected using Qiagen's Rneasy Mini Kit (74106) and assessed for RNA integrity number >9.5. For ChIP-seq, cells were fixed, quenched, sonicated to ~250 bp in 1% SDS lysis buffer, and incubated with Protein A Dynabeads (Novex 10008) and 5 µg of the indicated antibody. 2% pre-cleared chromatin prior to primary antibody addition was kept as input DNA. After wash, treatment with RNAse A and Proteinase K, DNA was eluted and purified with Qiagen's PCR purification kit (28106).For ATACSeq, cell nuclei were prepared from 5x10^4 cells and incubated with 2.5 μL transposase (Illumina) in a 50 μL reaction for 30 minutes at 37°C. For RNASeq, library construction was performed using TruSeq RNA Sample Prep Kit v2 (Illumina) following manufacturer's instructions. For ChIPSeq, DNA quality was checked using Agilent Technologies 2200 TapeStation and quantified using PicoGreen. Library construction was performed using the NEBNext ChIP-seq Library Prep Master Mix Set for Illumina according to manufacturer's conditions. Samples were pooled and submitted to New York Genome Center for SE50 sequencing. For ATACSeq, following purification of transposase-fragmented DNA, the library was amplified by PCR and subjected to PE50 high-throughput sequencing.