GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1702266 Query DataSets for GSM1702266
Status Public on Oct 19, 2017
Title etoh_BS
Sample type SRA
Source name MCF-7
Organism Homo sapiens
Characteristics cell line: MCF-7
estradiol treatment (min): 0min
tissue: breast adenocarcinoma
Treatment protocol Hormone starved cells were treated either with etoh (ctrl) or 100nM estradiol for 40min.
Growth protocol MCF-7 cells, normally grown in DMEM (10% FCS), were placed in hormone-free medium i.e. high glucose DMEM without phenol red supplemented with 5% charcoal stripped FCS for 72h before induction.
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted with Qiagen kit.
According to the instructions of the SureSelect MethylSeq Target Enrichment System (Agilent).
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model Illumina HiSeq 2500
Description Bisulfite converted gDNA
Data processing Reads were mapped with bowtie2.
Reads deduplication and methylation calling with Bismark (Krueger and Andrews, Bioinformatics 2011).
Genome_build: hg19
Supplementary_files_format_and_content: etoh.BS.bed; 40minE2.BS.bed; Score column in the bed files represents b-value (b-value*1000).
Submission date Jun 03, 2015
Last update date Oct 19, 2022
Contact name Evgenia Ntini
Organization name IMBB-FORTH
Street address Nik. Plastira 100
City Heraklion
ZIP/Postal code 71305
Country Greece
Platform ID GPL16791
Series (2)
GSE69505 Bisulfite sequencing coupled to target enrichment in MCF-7
GSE69507 Chromatin-release of the long ncRNA A-ROD is required for transcriptional activation of its target gene DKK1
BioSample SAMN03758677
SRA SRX1047273

Supplementary file Size Download File type/resource
GSM1702266_etoh.BS.bed.gz 63.9 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap