Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Neural
Cell type
Glioblastoma stem-like cells
NA
NA

Attributes by original data submitter

Sample

source_name
glioblastoma surgical resection
cell type
glioblastoma stem-like cells, transduced with shControl
tumor stage
human glioblastoma multiformis
chip antibody
H3K4me3 (Millipore, 07-473)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-Seq libraries were constructed with the DNA Seq sample prep. kit (ref. IP-102-1001) from Illumina according to the manufacturer’s instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
191311686
Reads aligned (%)
95.1
Duplicates removed (%)
41.6
Number of peaks
39132 (qval < 1E-05)

hg19

Number of total reads
191311686
Reads aligned (%)
94.3
Duplicates removed (%)
43.2
Number of peaks
38332 (qval < 1E-05)

Base call quality data from DBCLS SRA