Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

Cell type

Cell type Class
Kidney
Cell type
Kidney
MeSH Description
Body organ that filters blood for the secretion of URINE and that regulates ion concentrations.

Attributes by original data submitter

Sample

source_name
Mouse kidney
tissue
kidney
strain
C57BL/6
chip antibody
Rpb1 NTD (D8L4Y) (CST, 14958)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Frozen kidneys were briefly homogenized. Then tissues 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 (100-500 bp) with Bioruptor Sonicator. Immunoprecipitation was performed with Pol II antibody (CST, 14958). 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
Illumina HiSeq 2000

mm10

Number of total reads
11897707
Reads aligned (%)
94.6
Duplicates removed (%)
9.9
Number of peaks
14405 (qval < 1E-05)

mm9

Number of total reads
11897707
Reads aligned (%)
94.5
Duplicates removed (%)
9.8
Number of peaks
14379 (qval < 1E-05)

Base call quality data from DBCLS SRA