Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MED1

Cell type

Cell type Class
Kidney
Cell type
WT 9-12
Tissue
Kidney; Cyst From A Distal And Proximal Cortical Tubule
Cell Type
Epithelial
Disease
Autosomal Dominant Polycystic Kidney Disease (Adpkd)

Attributes by original data submitter

Sample

source_name
WT 9-12_control_Nrf2 activator sulforaphane (SFN)
cell line background
WT 9-12
cell type
immortalized epithelial cell line obtained from patients with ADPKD
genotype/variation
control
treatment
Nrf2 activator sulforaphane (SFN)
chip antibody
Bethyl, A300-793A

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked with 1% formaldehyde in 1 mL PBS for 10 min at RT. The crosslink was quenched by adding 67 μL of 2.5 M glycine(150 mM final). Cells were washed with PBS and harvested using ChIP lysis buffer. Cells were then sonicated to obtain fragments (200-500 bp) with Sonicator. Immunoprecipitation was performed with indicated antibodies. After elution and reversal cross-linking, DNA was purified for library preparation. Library construction were performed using VAHTS Universal DNA Library Prep Kit (Vazyme, ND607-02) and VATHS DNA Adapters set2 for Illumina (Vazyme Biotech, Cat.N802-01)

Sequencing Platform

instrument_model
HiSeq X Ten

hg38

Number of total reads
8485667
Reads aligned (%)
79.7
Duplicates removed (%)
6.6
Number of peaks
257 (qval < 1E-05)

hg19

Number of total reads
8485667
Reads aligned (%)
79.0
Duplicates removed (%)
6.7
Number of peaks
172 (qval < 1E-05)

Base call quality data from DBCLS SRA