Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RFX5

Cell type

Cell type Class
Blood
Cell type
GM12878
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Attributes by original data submitter

Sample

source_name
GM12878
biomaterial_provider
GM12878
lab
Stanford
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
GM12878
cell organism
human
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype
normal
cell lineage
mesoderm
cell sex
F
treatment
None
treatment description
No special treatment or protocol applies
antibody
RFX5_(200-401-194)
antibody antibodydescription
Rabbit polyclonal against RFX5 peptide corresponding to a region at amino acids 320 to 494 of the human protein conjugated to Keyhole Limpet Hemocyanin. Antibody Target: RFX5
antibody targetdescription
Activates transcription from class II MHC promoters. Recognizes X-boxes. Mediates cooperative binding betweenRFX and NF-Y. RFX binds the X1 box of MHC-II promoters
antibody vendorname
Rockland Immunochemicals
antibody vendorid
200-401-194
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
controlid
wgEncodeEH000706
replicate
1

Sequenced DNA Library

library_name
GSM935556: Stanford_ChipSeq_GM12878_RFX5_(200-401-194)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
57813064
Reads aligned (%)
84.6
Duplicates removed (%)
6.1
Number of peaks
6015 (qval < 1E-05)

hg38

Number of total reads
57813064
Reads aligned (%)
86.6
Duplicates removed (%)
4.8
Number of peaks
5789 (qval < 1E-05)

Base call quality data from DBCLS SRA