Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TRIM28

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
GSM1010849
antibody antibodydescription
Mouse monoclonal IgG, raised against a recombinant protein corresponding to an internal region of TRIM28 of human origin. Antibody Target: TRIM28
antibody targetdescription
The protein encoded by this gene mediates transcriptional control by interaction with the Kruppel-associated box repression domain found in many transcription factors. The protein localizes to the nucleus and is thought to associate with specific chromatin regions. The protein is a member of the tripartite motif family. This tripartite motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. (provided by RefSeq)
antibody vendorid
sc-81411
antibody vendorname
Santa Cruz Biotechnology
antibody
TRIM28_(SC-81411)
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
SL9830,SL8672
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
GSM1010849: HudsonAlpha_ChipSeq_K562_TRIM28_(SC-81411)_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
56036914
Reads aligned (%)
82.1
Duplicates removed (%)
6.4
Number of peaks
18960 (qval < 1E-05)

hg38

Number of total reads
56036914
Reads aligned (%)
83.1
Duplicates removed (%)
5.8
Number of peaks
18969 (qval < 1E-05)

Base call quality data from DBCLS SRA