Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Blood
Cell type
GM18505
Tissue
blood
Lineage
mesoderm
Description
lymphoblastoid, International HapMap Project, Yoruba in Ibadan, Nigera, treatment: Epstein-Barr Virus transformed

Attributes by original data submitter

Sample

source_name
Lymphoblastoid Cell Line
cell line
GM18505
antibody
H3K4ME3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq, nuclear lysates were sonicated using a Branson 250 Sonifier (power setting 2, 100% duty cycle for 7 x 30-s intervals). Clarified lysates corresponding to 20 million cells were treated with 1-5ug of antibody coupled to Protein G Dynabeads (Invitrogen #10003D, New York). The protein-DNA complexes were washed with RIPA buffer and eluted in 1% SDS TE at 65°C. ChIP DNA sequencing libraries were generated according to Illumina DNA Tru-Seq DNA Sample Preparation Kit Instructions (Illumina Part # FC-121-2001, San Diego, CA).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
32011656
Reads aligned (%)
99.5
Duplicates removed (%)
6.0
Number of peaks
26562 (qval < 1E-05)

hg19

Number of total reads
32011656
Reads aligned (%)
99.1
Duplicates removed (%)
6.0
Number of peaks
27386 (qval < 1E-05)

Base call quality data from DBCLS SRA