Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MYC

Cell type

Cell type Class
Blood
Cell type
P493-6
NA
NA

Attributes by original data submitter

Sample

source_name
P493 Myc
cell line
P493
treatment
none
chip antibody
anti-Myc (Santa Cruz Biotechnology, Catalog#: sc-764, Antibody name: N262, Lot#: D0413)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were treated with 1% formaldehyde for 10 minutes at room temperature to crosslink protein-DNA complexes, and reactions were then quenched using 125 mM glycine for 5 minutes. The cells were then lysed with sodium dodecyl sulfate (SDS) lysis buffer and sonicated for 10 minutes using the Diagenode Bioruptor. The fragmented chromatin was pre-cleared with bovine serum albumin (BSA), protein A Sepharose beads (Millipore) at 4 ˚C for 2 hours before immunoprecipitation with c-MYC or rabbit control IgG antibodies overnight at 4 ˚C. Sepharose beads were washed as described previously and eluted with SDS elution buffer before subjecting to reverse cross-linking at 65 ˚C overnight. Finally samples were purified using the QIAquick PCR Purification Kit (Qiagen) according to the manufacturer’s protocol. Single read - Illumina

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
111106326
Reads aligned (%)
38.5
Duplicates removed (%)
57.9
Number of peaks
19503 (qval < 1E-05)

hg38

Number of total reads
111106326
Reads aligned (%)
40.8
Duplicates removed (%)
56.1
Number of peaks
18754 (qval < 1E-05)

Base call quality data from DBCLS SRA