Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EZH2

Cell type

Cell type Class
Blood
Cell type
Multiple Myeloma
MeSH Description
A malignancy of mature PLASMA CELLS engaging in monoclonal immunoglobulin production. It is characterized by hyperglobulinemia, excess Bence-Jones proteins (free monoclonal IMMUNOGLOBULIN LIGHT CHAINS) in the urine, skeletal destruction, bone pain, and fractures. Other features include ANEMIA; HYPERCALCEMIA; and RENAL INSUFFICIENCY.

Attributes by original data submitter

Sample

source_name
Multiple myeloma
cell line
NTKO
cell type
Multiple myeloma
cell phenotype
high levels of MMSET
passage
15-20
chip antibody
anti-Ezh2 (Cell Signaling, catalog# 5246s, lot# 5)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For chromatin immunoprecipitation crosslinked cells were resuspended in nuclei lysis buffer (10 mM Tris pH 7.5, 10 mM NaCl, 0.2% NP-40, protease inhibitors) for ten minutes, centrifuged, washed and resuspended in SZAK RIPA buffer (150 mM NaCl, 1%v/v Nonidet P-40, 0.5% w/v deoxycholate, 0.1% w/v SDS, 50 mM Tris pH8, 5 mM EDTA, 0.5 mM PMSF, protease inhibitors) for sonication. Immunoprecipitations were performed overnight at 4°C using and imunoprecipitated chromatin was extracted using QIAquick PCR Purification Kit (Qiagen). 10 ng of input and ChIP material was processed using the Illumina kit (IP-102-1001)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
218129808
Reads aligned (%)
57.2
Duplicates removed (%)
39.1
Number of peaks
3315 (qval < 1E-05)

hg38

Number of total reads
218129808
Reads aligned (%)
59.0
Duplicates removed (%)
37.6
Number of peaks
4100 (qval < 1E-05)

Base call quality data from DBCLS SRA