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Sample GSM1579349 Query DataSets for GSM1579349
Status Public on May 04, 2015
Title H3K27me3 untreated
Sample type SRA
 
Source name H1 human ESCs
Organism Homo sapiens
Characteristics cell type: embryonic stem cells
passages/media: 40-50/mTeSR
treatment: untreated
antibody: H3K27me3 (Millipore 07-449)
Treatment protocol H1 hESCs were left untreated, or treated with Wnt3a (200ng/ml), Activin (100ng/ml), or both cytokines together for 4h (ChIPseq) or 6h (GRO-seq). For siRNA-GROseq experiments, hESCs were transfected with specific siRNAs (using RNAimax) 48h before adding cytokine treatments.
Growth protocol H1 hESCs grown in mTeSR media
Extracted molecule genomic DNA
Extraction protocol For ChIPseq, DNA was extracted Qiaquick PCR extraction kit (cat 28106, Qiagen). For GROseq, nascent RNA purification was done using Trizol LS (Invitrogene).
For ChIPseq, libraries were done with Illumina reagents. For GROseq, libraries were prepared with NEBnext kit (E7300S)
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2500
 
Data processing Peak calling was performed using Homer software
Genome_build: hg19
Supplementary_files_format_and_content: wig
 
Submission date Jan 07, 2015
Last update date May 15, 2019
Contact name conchi estaras
E-mail(s) cestarasibanez@salk.edu
Organization name The Salk Institute
Department Regulatory Biology
Lab Jones lab
Street address 10010 N Torrey Pines Rd
City La Jolla, San Diego
State/province CA
ZIP/Postal code 92037
Country USA
 
Platform ID GPL16791
Series (1)
GSE64758 Wnt3a-Activin A Synergy Induces eRNAPII Pause-Release and Counteracts a Yap1 Elongation Block during hESC Differentiation
Relations
BioSample SAMN03278051
SRA SRX833406
Named Annotation GSM1579349_H3K27me3_untreated.ucsc.bigWig

Supplementary file Size Download File type/resource
GSM1579349_H3K27me3_untreated.ucsc.bigWig 165.6 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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