Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TBP

Cell type

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

Attributes by original data submitter

Sample

source_name
K562
biomaterial_provider
ATCC
lab
Stanford
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
K562
cell organism
human
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 sex
F
treatment
None
treatment description
No special treatment or protocol applies
antibody
TBP
antibody antibodydescription
Mouse monoclonal. Immunogen is synthetic peptide conjugated to KLH derived from within residues 1 - 100 of HumanTATA binding protein TBP. Antibody Target: TBP
antibody targetdescription
General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription.
antibody vendorname
abcam
antibody vendorid
ab62126
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
wgEncodeEH000726
replicate
1

Sequenced DNA Library

library_name
GSM935495: Stanford_ChipSeq_K562_TBP_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
52574947
Reads aligned (%)
73.3
Duplicates removed (%)
17.2
Number of peaks
23300 (qval < 1E-05)

hg38

Number of total reads
52574947
Reads aligned (%)
75.0
Duplicates removed (%)
16.0
Number of peaks
23343 (qval < 1E-05)

Base call quality data from DBCLS SRA