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
SAMEA5425658
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
2019-03-18T13:32:44Z
INSDC status
public
Submitter Id
E-MTAB-7788:Replicate 2 Raji iBZLF1 full-length ChIP low
broker name
ArrayExpress
cell line
Raji
cell type
B-lymphoblast
common name
human
replicate
biological replicate
sample name
E-MTAB-7788:Replicate 2 Raji iBZLF1 full-length ChIP low

Sequenced DNA Library

library_name
Replicate 2 Raji iBZLF1 full-length ChIP low_p
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
1x10^8 Raji iBZLF1 cells were spun down (400 g, 7 min, RT) and washed with PBS. 1 x 10^8 cells were adjusted to a concentration of 5 x 10^5 cells/ ml before chromatin preparation. Detailed protocols can be found in the most recent version of the publicly available manuscript (https://www.biorxiv.org/content/10.1101/317354v1). The library construction was performed by the company Vertis Biotechnology AG (Freising, Germany) using TrueSeq sequencing adaptors and DNA fragments of 350 to 600 nt in length.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
19591736
Reads aligned (%)
95.4
Duplicates removed (%)
9.0
Number of peaks
24910 (qval < 1E-05)

hg19

Number of total reads
19591736
Reads aligned (%)
94.0
Duplicates removed (%)
9.1
Number of peaks
25199 (qval < 1E-05)

Base call quality data from DBCLS SRA