Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Blood
Cell type
RCH-ACV
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
Leukemia cell line (RCH-ACV)
cell line
Leukemia cell line; RCH-ACV
cell type
Paediatric pre B-cell line derived from cALL with t(1;19)(q23;p13) translocation

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: Fixed cells were lysed in 1% SDS lysis buffer. Samples were sonicated and protein-DNA complexes were isolated with antibody. Nascent RNA-seq: 108 4sU-treated cells were lysed in 10ml Trizol. RNA was extracted using chloroform and precipitated with EtOH. 4sU RNA was biotinylated with 1mg/ml Biotin-HPDP and nascent RNA was enriched for using streptavidin-coated beads. Libraries were prepared according to Illumina's protocol accompanying the DNA Library Prep Master Mix Set (Part# E6040) or Ultra RNA Library Prep Master Mix Set (Part# E7530).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
23982425
Reads aligned (%)
86.1
Duplicates removed (%)
9.6
Number of peaks
21580 (qval < 1E-05)

hg19

Number of total reads
23982425
Reads aligned (%)
85.7
Duplicates removed (%)
9.7
Number of peaks
21505 (qval < 1E-05)

Base call quality data from DBCLS SRA