Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

Cell type

Cell type Class
Blood
Cell type
Acute myeloid leukemia
NA
NA

Attributes by original data submitter

Sample

source_name
AML blast cells from blood
sample id
AML 8
gender
female
chip antibody
H3K27me3 (Abcam, ab6002)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were fixed with 1% formaldehyde for 10 min. After fixation, nuclei were isolated, the nuclear DNA was digested by micrococcal nuclease to 150-200 bp DNA fragments, the DNA fragments with attached proteins were resuspended in SDS-containing lysis buffer, and immunoprecipitated by antibodies against various histone modifications. For Illumina Hi-Seq 2500 sequencing we used New England BioLabs NEBNext ChIP-Seq library preparation reagent set for Illumina and and constructed library as described in the E6240 instruction manual. For SOLiD sequencing we used Applied Biosystems SOLiD 4 System and constructed library as described in the SOLiD 4 System Library Preparation Guide.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
36807026
Reads aligned (%)
100.0
Duplicates removed (%)
7.9
Number of peaks
409 (qval < 1E-05)

hg19

Number of total reads
36807026
Reads aligned (%)
100.0
Duplicates removed (%)
8.3
Number of peaks
165 (qval < 1E-05)

Base call quality data from DBCLS SRA