Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Ubtf

Cell type

Cell type Class
Blood
Cell type
MEL
Tissue
Blood
Lineage
cellLine
Description
Leukemia (K562 analog)

Attributes by original data submitter

Sample

source_name
MEL
biomaterial_provider
Weissman lab
lab
Stanford-m
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
MEL
cell organism
mouse
cell description
Leukemia (K562 analog)
cell sex
M
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
treatment
None
treatment description
No special treatment or protocol applies
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
age
immortalized
age description
Immortal cells
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
controlid
wgEncodeEM001946
strain
Unknown
strain description
Unknown strain origin

Sequenced DNA Library

library_name
GSM1003788: Stanford_ChipSeq_MEL_UBF_(sc-13125)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
52066009
Reads aligned (%)
76.1
Duplicates removed (%)
36.2
Number of peaks
3385 (qval < 1E-05)

mm9

Number of total reads
52066009
Reads aligned (%)
75.9
Duplicates removed (%)
36.2
Number of peaks
3380 (qval < 1E-05)

Base call quality data from DBCLS SRA