Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
YY1

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

GEO Accession
GSM1010897
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping at the C-terminus of YY1 of human origin. Antibody Target: YY1
antibody targetdescription
YY1 is a ubiquitously distributed transcription factor belonging to the GLI-Kruppel class of zinc finger proteins. The protein is involved in repressing and activating a diverse number of promoters. YY1 may direct histone deacetylases and histone acetyltransferases to a promoter in order to activate or repress the promoter, thus implicating histone modification in the function of YY1
antibody vendorid
sc-281
antibody vendorname
Santa Cruz Biotechnology
antibody
YY1_(SC-281)
cell description
neuroblastoma, newly promoted to tier 2: not in 2011 analysis, the SK-N-SH line was established from a neuroblastoma in a 4 year old individual.
cell karyotype
cancer
cell lineage
ectoderm
cell organism
human
cell sex
F
cell
SK-N-SH
controlid
SL12791,SL13505
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL13085,SL14045
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
GSM1010897: HudsonAlpha_ChipSeq_SK-N-SH_YY1_(SC-281)_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
50455969
Reads aligned (%)
76.0
Duplicates removed (%)
10.9
Number of peaks
23128 (qval < 1E-05)

hg38

Number of total reads
50455969
Reads aligned (%)
77.5
Duplicates removed (%)
9.7
Number of peaks
23384 (qval < 1E-05)

Base call quality data from DBCLS SRA