Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Blood
Cell type
GM19238
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project, Yoruba in Ibadan, Nigera, treatment: Epstein-Barr Virus transformed

Attributes by original data submitter

Sample

source_name
lymphoblastoid cell line
biomaterial_provider
GM19238
cell line
GM19238
cell type
lymphoblastoid cell line
population
YRI
ethnicity
Yoruba
country of origin
Nigeria
chip antibody
H3K27ac (Abcam ab4729)
chip antibody manufacturer
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted using protocol described in Cain et al. 2011, except that for some samples chromatin was sheared with a Covaris S2 (settings: 40 min duty cycle 20%, intensity 8, 200 cycles/burst, 500 uL at a time in 12 x 24 mm tubes). Prepared Illumina sequencing libraries as described by the ENCODE Project Consortium (2011), starting with 20 uL of ChIP output or 4 ng of pooled input sample.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg38

Number of total reads
42518152
Reads aligned (%)
99.4
Duplicates removed (%)
2.7
Number of peaks
22179 (qval < 1E-05)

hg19

Number of total reads
42518152
Reads aligned (%)
98.9
Duplicates removed (%)
3.2
Number of peaks
22789 (qval < 1E-05)

Base call quality data from DBCLS SRA