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Sample GSM2308567 Query DataSets for GSM2308567
Status Public on Oct 14, 2016
Title WGBS from mammary epithelial cell (ENCLB522AUR)
Sample type SRA
 
Source name Homo sapiens mammary epithelial primary cell female (50 years)
Organism Homo sapiens
Characteristics cell_type: mammary epithelial cell
biomaterial_type: primary cell
description: mammary epithelial cells
biosample encode accession: ENCBS091ENC (SAMN05733839)
age: 50 year
dev stage: unknown
donor_id: ENCDO830BUW
Sex: female
lab: Bradley Bernstein, Broad
link: ENCBS091ENC at ENCODE; https://www.encodeproject.org/ENCBS091ENC/
link: Derived from ENCODE donor ENCDO830BUW; https://www.encodeproject.org/ENCDO830BUW/
link: growth protocol; https://www.encodeproject.org/documents/d973249b-03ee-45b7-b2c5-c21dca40a8b7/@@download/attachment/HMEC_Bernstein_protocol.pdf
link: ENCODE dbxrefs HMEC; http://genome.cse.ucsc.edu/cgi-bin/hgEncodeVocab?ra=encode/cv.ra&term=HMEC
link: Lonza sample source; http://www.lonza.com/products-services/bio-research/primary-and-stem-cells/human-cells-and-media/mammary-epithelial-cells-and-media/hmec-human-mammary-epithelial-cells.aspx
Extracted molecule genomic DNA
Extraction protocol growth protocol: https://www.encodeproject.org/documents/6e461240-5af7-462c-843f-3dae804f957a/@@download/attachment/HAIB_Myers_WGBSprotocol_2014-10-30.pdf
 
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model HiSeq X Ten
 
Description https://www.encodeproject.org/experiments/ENCSR656TQD/
***************
biological replicate number: 1
technical replicate number: 1
description: HAIB Whole Genome Bisulfite Sequencing HMEC
experiment encode accession: ENCSR656TQD
assay title: WGBS
assembly: GRCh38
encode release date: 2016-06-14
lab: Richard Myers, HAIB
library encode accession: ENCLB522AUR
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Sep 09, 2016
Last update date May 15, 2019
Contact name ENCODE DCC
E-mail(s) encode-help@lists.stanford.edu
Organization name ENCODE DCC
Street address 300 Pasteur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL20795
Series (1)
GSE86732 WGBS from mammary epithelial cell (ENCSR656TQD)
Relations
BioSample SAMN05733839
SRA SRX2156984
Named Annotation GSM2308567_ENCFF319CBP_signal_GRCh38.bigWig
Named Annotation GSM2308567_ENCFF494IMP_methylation_state_at_CHG_GRCh38.bed.gz
Named Annotation GSM2308567_ENCFF699GKH_methylation_state_at_CpG_GRCh38.bed.gz
Named Annotation GSM2308567_ENCFF742RFP_methylation_state_at_CHH_GRCh38.bed.gz

Supplementary file Size Download File type/resource
GSM2308567_ENCFF157GOP_methylation_state_at_CHH_GRCh38.bigBed 10.8 Gb (ftp)(http) BIGBED
GSM2308567_ENCFF319CBP_signal_GRCh38.bigWig 7.2 Gb (ftp)(http) BIGWIG
GSM2308567_ENCFF494IMP_methylation_state_at_CHG_GRCh38.bed.gz 2.5 Gb (ftp)(http) BED
GSM2308567_ENCFF699GKH_methylation_state_at_CpG_GRCh38.bed.gz 625.5 Mb (ftp)(http) BED
GSM2308567_ENCFF724LWA_methylation_state_at_CHG_GRCh38.bigBed 4.3 Gb (ftp)(http) BIGBED
GSM2308567_ENCFF742RFP_methylation_state_at_CHH_GRCh38.bed.gz 7.9 Gb (ftp)(http) BED
GSM2308567_ENCFF998ISW_methylation_state_at_CpG_GRCh38.bigBed 1.2 Gb (ftp)(http) BIGBED
GSM2308567_ENCLB522AUR_README.txt.gz 789 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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