Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

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

Attributes by original data submitter

Sample

source_name
Raji B cells
chip antibody
H3K4me3 (Abcam, ab8580, lot GR240214-1)
genotype
rWT

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were harvested at 72 hours after induction (48 hours after α-amanitin) to perform ChIP using specific antibodies or total RNA, polyA-RNA and Nascent RNA was extracted using corresponding protocols as described in manuscript. ChIP-seq libraries were prepared with Illumina's ChIP Sample Prep Kit according to standard protocol. RNA-seq Libraries were prepared either with Illumina's Small RNA Library Prep Kit by using a modified protocol described in manuscript or with Epicenter's ScriptSeq V2 library preparation protocol according to manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
35588425
Reads aligned (%)
98.2
Duplicates removed (%)
81.2
Number of peaks
20017 (qval < 1E-05)

hg19

Number of total reads
35588425
Reads aligned (%)
97.5
Duplicates removed (%)
81.6
Number of peaks
20492 (qval < 1E-05)

Base call quality data from DBCLS SRA