Antigen

Antigen Class

RNA polymerase

Antigen

RNA polymerase II

Cell type

Cell type Class

Blood

Cell type

RAJI

Primary Tissue

Blood

Tissue Diagnosis

Malignant Lymphoma - Burkitts Type

Sample

source_name

Raji (lymphocyte)

cell type

Raji (EBNA 1 positive)

genotype/variation

Expressing shRNA targeting SMN under CMV promoter.

antibody

RNAPII CTD (8wg16) (purified in the lab)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

10e7-10e8 cells were cross-linked for 10 min in 1% formaldehyde. Lysates were sonicated to a DNA fragment length range of 200-300 bp using a Bioruptor (Diagenode). RNAPII was immunoprecipitated with 2ug of antibodies and Dynabeads Protein G (Invitrogen). Subsequently, crosslinks were reversed at 65°C over night and bound DNA fragments were purified (EZ-10 Spin Column PCR Product Purification kit, Bio Basic). Sequencing libraries were constructed using the TruSeq ChIP Sample Prep Kit (Illumina) according the manufacturer's instructions.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

74533735

Reads aligned (%)

69.2

Duplicates removed (%)

78.8

Number of peaks

36682 (qval < 1E-05)

hg19

Number of total reads

74533735

Reads aligned (%)

67.8

Duplicates removed (%)

81.1

Number of peaks

38149 (qval < 1E-05)