Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PRDM11

Cell type

Cell type Class
Blood
Cell type
U-2932
Primary Tissue
Blood
Site of Extraction
Ascites
Tissue Diagnosis
Lymphoma B-cell

Attributes by original data submitter

Sample

source_name
U2932 human lymphoma cell line
cell line
U2932 lymphoma cell line
chip antibody
rabbit polyclonal anti-PRDM11 antibody 2 (non-commercial)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
U2932 cells were collected, cross-linked, sonicated and lyzed. Samples were immunoprecipitated with polyclonal antibodies specific for PRDM11, RNA polII (sc-899X, Santa Cruz) or rabbit IgG (Sigma). Eluted DNA was de-crosslinked and extracted using the QIAquick PCR Purification Kit (Qiagen) or MinElute PCR purification Kit (Qiagen) DNA libraries were build using NEBNext DNA Library Prep (NEB) according to manufacturer’s instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
36129746
Reads aligned (%)
7.4
Duplicates removed (%)
92.1
Number of peaks
323 (qval < 1E-05)

hg38

Number of total reads
36129746
Reads aligned (%)
8.9
Duplicates removed (%)
90.6
Number of peaks
359 (qval < 1E-05)

Base call quality data from DBCLS SRA