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Sample GSM1164902 Query DataSets for GSM1164902
Status Public on Aug 21, 2013
Title chipseq WT H3K27me3
Sample type SRA
Source name neonatal tail tip fibroblasts, Hotair wildtype
Organism Mus musculus
Characteristics strain: backcross to C57BL6 with over 97% similarity
cell type: neonatal tail tip fibroblasts
genotype/variation: Hotair wildtype
Extracted molecule genomic DNA
Extraction protocol Extracted DNA was RNase treated and purified using Qiagen column, and sequencing libraries were made following Illumina’s protocol.
For ChIP-seq libraries, chromatin was solubilized and isolated with corresponding antibodies, and the libraries were made following Illumina protocols.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer IIx
Data processing Reads were aligned to the mouse reference sequence NCBI Build 37/mm9 with the TopHat algorithm.
Genome_build: mm9
Supplementary_files_format_and_content: For ChIP-seq, the processed file is in bedgraph format with for both wildtype, Hotair knockout for H3K27me3 and H3K4me3.
Submission date Jun 17, 2013
Last update date May 15, 2019
Contact name Kun Qu
Organization name Stanford University
Department Dermatology
Lab Howard Chang
Street address 269 Campus Dr. CCSR 2150
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platform ID GPL11002
Series (2)
GSE48005 Targeted disruption of Hotair leads to homeotic transformation and de-repression of imprinted genes [RNA-Seq, ChIP-Seq]
GSE48007 Targeted disruption of Hotair leads to homeotic transformation and de-repression of imprinted genes
BioSample SAMN02205124
SRA SRX306690

Supplementary file Size Download File type/resource
GSM1164902_WT_H3K27me3.bedgraph.gz 174.7 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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