Antigen

Antigen Class

TFs and others

Antigen

ATF4

Cell type

Cell type Class

Digestive tract

Cell type

DLD-1

Primary Tissue

Colon

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

Human colon adenocarcinoma DLD-1 cell lines (ATCC CCL-221)

tissue

Human colon adenocarcinoma DLD-1 cell lines (ATCC CCL-221)

antibody

ATF4

myc status

activated

replicate

2

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin fragments were prepared from DLD-1: MycER cells following 8hr of MYC activation (Vehicle or 4-OHT treatment). DNA was sonicated using Covaris 200 instrument at settings of Temp 5-9, PP200, DF 10, CB 200, 720sec. 50ug DNA was used for each ChIP. The following antibodies from Santa Cruz Biotechnology were used to perform ChIP at a concentration of 5ug: ATF4 (cat# sc-200x, lot# G0115, c-20), MYC (cat# sc-764, lot#D0413, N-262), Rabbit IgG (cat# sc-2027x, lot# G2516). Library was prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina #E7645S and NEBNext Multiplex Oligos for Illumina #E7335S according to manufacturer's instructions.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

67658079

Reads aligned (%)

98.3

Duplicates removed (%)

10.9

Number of peaks

1745 (qval < 1E-05)

hg19

Number of total reads

67658079

Reads aligned (%)

97.6

Duplicates removed (%)

12.2

Number of peaks

1449 (qval < 1E-05)