Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CBX3

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

GEO Accession
GSM1010732
antibody antibodydescription
Mouse monoclonal IgG, raised against recombinant CBX3 of human origin. Antibody Target: CBX3
antibody targetdescription
At the nuclear envelope, the nuclear lamina and heterochromatin are adjacent to the inner nuclear membrane. The protein encoded by this gene binds DNA and is a component of heterochromatin. This protein also can bind lamin B receptor, an integral membrane protein found in the inner nuclear membrane. The dual binding functions of the encoded protein may explain the association of heterochromatin with the inner nuclear membrane. This protein binds histone H3 tails methylated at Lys-9 sites. This protein is also recruited to sites of ultraviolet-induced DNA damage and double-strand breaks. Two transcript variants encoding the same protein but differing in the 5' UTR, have been found for this gene.
antibody vendorid
sc-101004
antibody vendorname
Santa Cruz Biotechnology
antibody
CBX3_(SC-101004)
cell description
leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype
cancer
cell lineage
mesoderm
cell organism
human
cell sex
F
cell
K562
controlid
SL6023
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL7105,SL7568
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010732: HudsonAlpha_ChipSeq_K562_CBX3_(SC-101004)_v042211.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
95015101
Reads aligned (%)
80.7
Duplicates removed (%)
5.0
Number of peaks
51996 (qval < 1E-05)

hg38

Number of total reads
95015101
Reads aligned (%)
81.7
Duplicates removed (%)
4.3
Number of peaks
52281 (qval < 1E-05)

Base call quality data from DBCLS SRA