Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

source_name
Chronic Myelogenous Leukemia
cell line
K562
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted from cross-linked cells, and sonicated to 200-700 bp fragments. Immunoprecipitation was performed with 15 µg of chromatin for 2.5 µg of anti-H3K27ac and H3K9me3 antibody or 75µg chromatin for 5µg Cas9 antibody. DNA was purified using the GeneJET PCR purification kit (Thermo Fisher). Libraries were prepared from 1-5 ng of DNA using the NEBNext ultra II DNA library prep kit.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
50120809
Reads aligned (%)
96.7
Duplicates removed (%)
9.8
Number of peaks
1535 (qval < 1E-05)

hg19

Number of total reads
50120809
Reads aligned (%)
96.0
Duplicates removed (%)
11.6
Number of peaks
1194 (qval < 1E-05)

Base call quality data from DBCLS SRA