GSM2345019: H3.3-HA ChIP-seq ES cells 8hr DOX; Mus musculus; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3.3
Cell type
Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA
Attributes by original data submitter
Sample
source_name
H3.3-HA ChIP-seq ES cells 8hr DOX
strain
Nagy(R1)-129X1x129S1
cell type
mESC
chip antibody
HA antibody (ab9110 from Abcam)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: was performed as described in Schlesinger and Goff, 2013. In short, cells from different time points after dox addition, with and without 4 days retinoic acid (4dRA) treatment, were collected and fixed. IP was done using Magna ChIP kit (Millipore) and DNA was purified using QIAquick PCR purification kit (Qiagen). ChIP Grade HA tag antibody was used (ab9110 from Abcam). 3'-end RNA-seq: Extraction, library preparation and sequencing was done using the RNesay kit (Qiagen) according to the manufacturer’s instructions, library preparation was done with QuantSeq 3′ mRNA-Seq Library Prep Kit by Lexogen. Four RNA libraries were prepared: from ESCs and 4dRA cells without or with 4h Dox addition. Libraries were subjected to single-end sequencing using Illumina Next-Seq 500 platform. ChIP-seq: Libraries were prepared as previously described (Blecher-Gonen et al., 2013).