Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Blood
Cell type
RAJI
Primary Tissue
Blood
Tissue Diagnosis
Malignant Lymphoma - Burkitts Type

Attributes by original data submitter

Sample

ENA first public
2019-04-01
ENA last update
2019-03-18
ENA-CHECKLIST
ERC000011
External Id
SAMEA5425652
INSDC center alias
Research Unit Gene Vectors Helmholtz Zentrum Munchen German Research Center for Environmental Health and German Center for Infection Research (DZIF), Partner site Munich, Germany
INSDC center name
Research Unit Gene Vectors Helmholtz Zentrum Munchen German Research Center for Environmental Health and German Center for Infection Research (DZIF), Partner site Munich, Germany
INSDC first public
2019-04-01T17:02:00Z
INSDC last update
2019-03-18T13:16:45Z
INSDC status
public
Submitter Id
E-MTAB-7787:Raji iBZLF1 4816 input 0 h
broker name
ArrayExpress
cell line
Raji
cell type
B-lymphoblast
common name
human
sample name
E-MTAB-7787:Raji iBZLF1 4816 input 0 h

Sequenced DNA Library

library_name
Raji iBZLF1 4816 input 0 h_s
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin IPs were conducted with an antibody directed against CTCF (Upstate, #07-729) comparable to ChIP experiments described in Woellmer et al (2012) (Woellmer A, Arteaga-Salas JM, Hammerschmidt W (2012) BZLF1 governs CpG-methylated chromatin of Epstein-Barr virus reversing epigenetic repression. PLoS Pathog 8:e1002902. doi: 10.1371/journal.ppat.1002902). DNA fragments were isolated in principle as described in Woellmer et al (2012) (Woellmer A, Arteaga-Salas JM, Hammerschmidt W (2012) BZLF1 governs CpG-methylated chromatin of Epstein-Barr virus reversing epigenetic repression. PLoS Pathog 8:e1002902. doi: 10.1371/journal.ppat.1002902). The library construction was performed by the company Vertis Biotechnology AG (Freising, Germany) using TrueSeq sequencing adaptors and DNA fragments of 300 to 500 nt in length.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
7145661
Reads aligned (%)
97.9
Duplicates removed (%)
1.1
Number of peaks
353 (qval < 1E-05)

hg19

Number of total reads
7145661
Reads aligned (%)
96.8
Duplicates removed (%)
2.0
Number of peaks
361 (qval < 1E-05)

Base call quality data from DBCLS SRA