Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
UBTF

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
UBTF_(SAB1404509)
antibody antibodydescription
Mouse monoclonal, immunogen:UBTF (NP_055048, 551 a.a. ~ 651 a.a) partial recombinant protein with GST tag. Antibody Target: UBTF
antibody targetdescription
Upstream binding factor (UBF) is a transcription factor required for expression of the 18S, 5.8S, and 28S ribosomal RNAs, along with SL1 (a complex of TBP (MIM 600075) and multiple TBP-associated factors or 'TAFs'). Two UBF polypeptides, of 94 and 97 kD, exist in the human (Bell et al., 1988 (PubMed 3413483)). UBF is a nucleolar phosphoprotein with both DNA binding and transactivation domains. Sequence-specific DNA binding to the core and upstream control elements of the human rRNA promoter is mediated through several HMG boxes
antibody vendorname
Sigma-Aldrich
antibody vendorid
SAB1404509
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
GSM935642: Stanford_ChipSeq_K562_UBTF_(SAB1404509)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
56100654
Reads aligned (%)
57.3
Duplicates removed (%)
40.3
Number of peaks
20714 (qval < 1E-05)

hg38

Number of total reads
56100654
Reads aligned (%)
58.6
Duplicates removed (%)
39.3
Number of peaks
20786 (qval < 1E-05)

Base call quality data from DBCLS SRA