Antigen

Antigen Class

TFs and others

Antigen

ATF3

Cell type

Cell type Class

Epidermis

Cell type

Dermal fibroblast

NA

NA

Sample

source_name

overexpressed ATF3 ChIPSeq

tissue

abdomen skin

cell type

primary dermal fibroblasts

passage

4-6

chip antibody

ATF3 (SantaCruz Cat.No.188 C-19)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin from 10 milions fixed cells was fragmented to a size range of 100–300 bases with a Diagenode Bioruptor. Solubilized chromatin was immunoprecipitated with antibody against ATF3. Antibody–chromatin complexes were pulled-down using magnetic beads, washed and then eluted. After cross-link reversal and proteinase K treatment, immunoprecipitated DNA was extracted with phenol-chloroform, ethanol precipitated, and treated with RNase. ChIPed DNA was quantified by fluorometry on the Qubit system (Invitrogen). A total of 10 ng DNA were used for library preparation using NEBNext® ChIP-Seq Library Prep Reagent Set for Illumina, as recommended by the manufacturer. NEBNext ChIP-seq Library kit (New England Biolabs)

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg19

Number of total reads

34372828

Reads aligned (%)

94.3

Duplicates removed (%)

5.5

Number of peaks

7976 (qval < 1E-05)

hg38

Number of total reads

34372828

Reads aligned (%)

95.2

Duplicates removed (%)

4.1

Number of peaks

8380 (qval < 1E-05)