Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Grhl3

Cell type

Cell type Class
Epidermis
Cell type
Epidermis
MeSH Description
The external, nonvascular layer of the skin. It is made up, from within outward, of five layers of EPITHELIUM: (1) basal layer (stratum basale epidermidis); (2) spinous layer (stratum spinosum epidermidis); (3) granular layer (stratum granulosum epidermidis); (4) clear layer (stratum lucidum epidermidis); and (5) horny layer (stratum corneum epidermidis).

Attributes by original data submitter

Sample

source_name
adult mouse epidermis
chip antibody
Grhl3 (custom made)
age
adult

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. 28 ug of sonicated chromatin was used for the Grhl3 IPs. Sequencing libraries were generated for the Grhl3 and Input samples using Illumina Tru-Seq ChIP-Seq kit, multiplexed to be sequenced in a single lane, according to the Illumina protocol for ChIP-Seq library preparation, with some modification. After adaptor ligation, PCR amplification was performed prior to size selection of the library [Schmidt D, Methods, 2009]. Clustering and 50-cycle single end sequencing were performed on the Illumina Hi-Seq 2000 Genome Analyzer.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
208408529
Reads aligned (%)
84.7
Duplicates removed (%)
42.3
Number of peaks
2836 (qval < 1E-05)

mm9

Number of total reads
208408529
Reads aligned (%)
84.2
Duplicates removed (%)
42.1
Number of peaks
2502 (qval < 1E-05)

Base call quality data from DBCLS SRA