Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXP1

Cell type

Cell type Class
Blood
Cell type
RC-K8
Primary Tissue
Blood
Tissue Diagnosis
Lymphoma B-cell

Attributes by original data submitter

Sample

ENA checklist
ERC000011
INSDC center alias
Institute of Molecular Cancer Research, University of Zurich
INSDC center name
Institute of Molecular Cancer Research, University of Zurich
INSDC first public
2015-12-01T17:02:06Z
INSDC last update
2018-03-09T02:14:53Z
INSDC status
public
SRA accession
ERS789384
Sample Name
ERS789384
alias
E-MTAB-3741:RC-K8 FOXP1 IP
broker name
ArrayExpress
cell line
RC-K8
disease
diffuse large B-cell lymphoma
disease state
diffuse large B-cell lymphoma
immunoprecipitate
FOXP1 IP
organism
Homo sapiens
sex
male
title
RC-K8 FOXP1 IP

Sequenced DNA Library

library_name
RC-K8 FOXP1 IP
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The DLBCL cell lines used were SUDHL6, RC-K8 and SUDHL4 of GCB DLBCL subtype and U-2932 of ABC DLBCL. Cell lines were maintained at 37 degrees C, 5%CO2 in a humidified atmosphere in RPMI supplemented with 20% heat-inactivated FBS and antibiotics. DNA was isolated using the NucleoSpin Gel- and PCR-cleanup Kit (Macherey Nagel). 1.5ng of DNA was amplified using the Ovation Ultralow Library System (NuGEN).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
24811945
Reads aligned (%)
74.4
Duplicates removed (%)
22.1
Number of peaks
711 (qval < 1E-05)

hg38

Number of total reads
24811945
Reads aligned (%)
76.7
Duplicates removed (%)
20.6
Number of peaks
991 (qval < 1E-05)

Base call quality data from DBCLS SRA