Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
SKNO-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
D15-2441
cell line
SK-NO-1
time point
4 days
chip antibody
none
agent
RN-1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Treated cells in culture were cross-linked with 1% formaldehyde for 10 minutes and then queched with glycine. Washed cells were lysed and sonicated, followed by antibody immunoprecipitation. DNA libraries for ChIP-seq were prepared using Ovation Ultralow DR Multiplex System kits (0330-32, NuGEN) followed by Illumina sequencing at the MIT BioMicro Center.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
68681717
Reads aligned (%)
98.1
Duplicates removed (%)
7.8
Number of peaks
1653 (qval < 1E-05)

hg19

Number of total reads
68681717
Reads aligned (%)
97.2
Duplicates removed (%)
9.2
Number of peaks
1379 (qval < 1E-05)

Base call quality data from DBCLS SRA