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
UBF_(sc-13125)
antibody antibodydescription
UBF (F-9) is a mouse monoclonal antibody raised against amino acids 1-220 of UBF of human origin. Antibody Target: UBF
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
Santa Cruz Biotech
antibody vendorid
sc-13125
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
GSM935338: Stanford_ChipSeq_K562_UBF_(sc-13125)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
53288834
Reads aligned (%)
64.3
Duplicates removed (%)
31.9
Number of peaks
7647 (qval < 1E-05)

hg38

Number of total reads
53288834
Reads aligned (%)
65.9
Duplicates removed (%)
30.7
Number of peaks
7715 (qval < 1E-05)

Base call quality data from DBCLS SRA