Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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
kidney
strain
C57BL/6
primary antibody
HNF1b antibody
secondary antibody
ERRg antibody
age
2-3 months

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Kidneys were dissected from 2-3-month-old WT mice and chopped into fine pieces. After digestion with 0.5 mg/ml collagenase I (Worthington) for 15 min at 37 °C, the kidney/collagenase mixture was pushed through a 70 µm cell strainer. ACK lysis buffer was then used to remove red blood cells. Yields were ~8 million cells per mouse. Cells were cross-linked with disuccinimidyl glutarate for 30 minutes followed by 1% formaldehyde for 10 minutes, then glycine quenched. The samples were sonicated and subjected to immunoprecipitation. Precipitates were washed and DNA was purified. KAPA Hyper Prep Kit (Kapa Biosciences)

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
71211351
Reads aligned (%)
70.8
Duplicates removed (%)
88.9
Number of peaks
9653 (qval < 1E-05)

mm9

Number of total reads
71211351
Reads aligned (%)
70.7
Duplicates removed (%)
89.0
Number of peaks
9684 (qval < 1E-05)

Base call quality data from DBCLS SRA