Antigen

Antigen Class

TFs and others

Antigen

RBPJ

Cell type

Cell type Class

Epidermis

Cell type

Dermal fibroblast

NA

NA

Sample

source_name

primary dermal fibroblasts

body site

abdomen skin

passage

4-6

antibodies

CSL (Eurogentech, Seraign, Belgium - Affinity purified rabbit polyclonal -Epitopes: aa 209-224, aa 426-440 )

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 two different antibody against CSL. Antibody–chromatin complexes were pulled-down using protein A-sepharose, 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.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

26873052

Reads aligned (%)

22.7

Duplicates removed (%)

7.5

Number of peaks

1503 (qval < 1E-05)

hg19

Number of total reads

26873052

Reads aligned (%)

22.5

Duplicates removed (%)

8.7

Number of peaks

1471 (qval < 1E-05)