Antigen

Antigen Class

TFs and others

Antigen

RAD21

Cell type

Cell type Class

Digestive tract

Cell type

HCT 116

Primary Tissue

Colon

Tissue Diagnosis

Carcinoma

Sample

source_name

Rad21-ChIP-seq-HCT_DAU

cell line

HCT116

cell type

Colon carcinoma cells

growth phase

exponential growth phase

treated with

250 nM daunorubicin for 8hrs

chip antibody

Rad21 (AbCam 992)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP were performed as described in Gevry N, Chan HM, Laflamme L, Livingston DM, Gaudreau L. p21 transcription is regulated by differential localization of histone H2A.Z. Genes & development. 2007;21(15):1869-81. PubMed PMID: 17671089 except for the following steps. For each treatment conditions six immuno-precipitations were performed. Immuno-precipitations were performed using Dynabeads coupled to protein A (Life Technologies) without pre-clearing. The libraries for deep-sequencing were prepared from 10 ng ChIPed DNA using the NEBNext Ultra DNA Library Prep Kit for Illumina (NEB) according to manufacturer’s protocol

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg19

Number of total reads

26770715

Reads aligned (%)

95.7

Duplicates removed (%)

3.1

Number of peaks

37672 (qval < 1E-05)

hg38

Number of total reads

26770715

Reads aligned (%)

96.0

Duplicates removed (%)

3.1

Number of peaks

37788 (qval < 1E-05)