Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Blood
Cell type
RPCI-WM1
NA
NA

Attributes by original data submitter

Sample

ENA first public
2019-05-08
ENA last update
2019-03-05
ENA-CHECKLIST
ERC000011
External Id
SAMEA5396138
INSDC center alias
Department of Anatomy, University of Iceland
INSDC center name
Department of Anatomy, University of Iceland
INSDC first public
2019-05-08T04:04:30Z
INSDC last update
2019-03-05T15:38:44Z
INSDC status
public
Submitter Id
E-MTAB-7739:RPCI-WM1 H3-1
broker name
ArrayExpress
cell line
RPCI-WM1
cell type
lymphocyte
common name
human
developmental stage
adult
disease
Waldenstrom macroglobulinemia
genotype
wild type genotype
organism part
lymph node
sample name
E-MTAB-7739:RPCI-WM1 H3-1

Sequenced DNA Library

library_name
RPCI-WM1 H3-1_p
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation was performed on formaldehyde-crosslinked cells. ChIP DNA was extracted with phenol-chloroform. Sequencing libraries were prepared from ChIP DNA using the NEBNext® Ultra™ DNA Library Prep Kit for Illumina® (#E7370S, New England Biolabs) with the Multiplex Oligos for Illumina (#E7335S and #E7500S, New England Biolabs).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
59333112
Reads aligned (%)
97.5
Duplicates removed (%)
3.0
Number of peaks
2163 (qval < 1E-05)

hg19

Number of total reads
59333112
Reads aligned (%)
96.5
Duplicates removed (%)
3.3
Number of peaks
621 (qval < 1E-05)

Base call quality data from DBCLS SRA