Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HDAC6

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
H1-hESC
biomaterial_provider
WiCell Research Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
antibody antibodydescription
Polyclonal Antigen Affinity Purified, Unconjugated, Liquid. Antibody Target: HDAC6
antibody targetdescription
Histone deacetylase 6 (HDAC6) is a class II histone deacetylase that catalyzes the deacetylation of lysine residues on the N-terminus of core histones. HDAC6 has also been identified as a cytoplasmic deacetylase that acts on tubulin and HSP90 to influence cell motility. Recently HDAC6 has been found to be involved in the stress response as a component of cytoplasmic stress granules.
antibody vendorname
Bethyl Laboratories
antibody vendorid
A301-341A
controlid
wgEncodeEH000088
replicate
1
softwareversion
ScriptureVPaperR3
cell sex
M
antibody
HDAC6_(A301-341A)
antibody antibodydescription
Polyclonal Antigen Affinity Purified, Unconjugated, Liquid. Antibody Target: HDAC6
antibody targetdescription
Histone deacetylase 6 (HDAC6) is a class II histone deacetylase that catalyzes the deacetylation of lysine residues on the N-terminus of core histones. HDAC6 has also been identified as a cytoplasmic deacetylase that acts on tubulin and HSP90 to influence cell motility. Recently HDAC6 has been found to be involved in the stress response as a component of cytoplasmic stress granules.
antibody vendorname
Bethyl
antibody vendorid
A301-341A
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
H1-hESC/None/Input/std
labversion
Illumina_GA2x
labversion description
Illumina Genome Analyzer IIx
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM1003571: Broad_ChipSeq_H1-hESC_HDAC6_(A301-341A)
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
44619493
Reads aligned (%)
56.1
Duplicates removed (%)
28.6
Number of peaks
1234 (qval < 1E-05)

hg38

Number of total reads
44619493
Reads aligned (%)
57.7
Duplicates removed (%)
27.2
Number of peaks
1121 (qval < 1E-05)

Base call quality data from DBCLS SRA