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

source_name
SK-N-SH_RA
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
neuroblastoma cell line, treatment: differentiated with retinoic acid, (Biedler, et al. Morphology and Growth, Tumorigenicity, and Cytogenetics of Human Neuroblastoma Cells in Continuous Culture. Cancer Research 33, 2643-2652, November 1973.)
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 vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-281
controlid
SL2905
labexpid
SL3639,SL3640
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping at the C-terminus of YY1 of human origin
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 vendorname
Santa Cruz Biotech
antibody vendorid
sc-281
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.2
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid
SL2905
labexpid
SL3639
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803498: HudsonAlpha_ChipSeq_SK-N-SH_RA_YY1_(SC-281)_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
67642201
Reads aligned (%)
77.7
Duplicates removed (%)
14.0
Number of peaks
40534 (qval < 1E-05)

hg38

Number of total reads
67642201
Reads aligned (%)
79.3
Duplicates removed (%)
12.7
Number of peaks
40710 (qval < 1E-05)

Base call quality data from DBCLS SRA