Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Neural
Cell type
Glioma stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
Cell line
cell type
patient-derived Xenograph glioma stem cells
passages
2 to 3
chip antibody
AB8895

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was isolated and purified from homogenized liver tissue using a serial phenol: chloroform extraction. Trizol reagent was used for extracting total RNA following the manufacturer’s protocol. Total RNA samples are converted to Illumina sequencing libraries using Illumina’s Truseq RNA Sample Preparation Kit; The final libraries from RRBS were prepared for sequencing as per the manufacturer’s instructions in the Illumina cBot and HiSeq Paired en

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
21533265
Reads aligned (%)
99.4
Duplicates removed (%)
2.4
Number of peaks
849 (qval < 1E-05)

hg19

Number of total reads
21533265
Reads aligned (%)
99.2
Duplicates removed (%)
2.5
Number of peaks
846 (qval < 1E-05)

Base call quality data from DBCLS SRA