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GEO accession:
Sample GSM1582461
Query DataSets for GSM1582461
Status
Public on Apr 19, 2017
Title
Reference Epigenome: ChIP-Seq Analysis of H3K27ac in Human Liver Tissue; renlab.H3K27ac.STL011LI.02.01
Sample type
SRA
Source name
Liver tissue; renlab.H3K27ac.STL011LI.02.01
Organism
Homo sapiens
Characteristics
sra sample accession: SRS382947
disease: coronary artery disease
biomaterial_provider: Shin Lin, Stanford University
biomaterial_type: Primary Tissue
tissue_type: Liver
tissue_depot: N/A
collection_method: Autopsy
donor_id: STL011
donor_age: 32
donor_health_status: coronary artery disease. No history of hypertension or diabetes.
donor_sex: Male
donor_ethnicity: Caucasian
biosamplemodel: Generic
experiment_type: Histone H3K27ac
extraction_protocol: See
http://bioinformatics-renlab.ucsd.edu/RenLabChipProtocolV1.pdf
extraction_protocol_type_of_sonicator: Biorupter
extraction_protocol_sonication_cycles: 80
chip_protocol: See
http://bioinformatics-renlab.ucsd.edu/RenLabChipProtocolV1.pdf
chip_protocol_chromatin_amount: 500 micrograms
chip_protocol_bead_type: magnetic anti-rabbit
chip_protocol_bead_amount: 33,500,000
chip_protocol_antibody_amount: 5 micrograms
chip_antibody: H3K27ac
chip_antibody_provider: Active Motif
chip_antibody_catalog: AM 61017
chip_antibody_lot: 14013006
Extracted molecule
genomic DNA
Extraction protocol
Library construction protocol: See
http://bioinformatics-renlab.ucsd.edu/RenLabLibraryProtocolV1.pdf
Library strategy
ChIP-Seq
Library source
genomic
Library selection
ChIP
Instrument model
Illumina HiSeq 2000
Description
sample_term_id: UBERON_0002107
assay_term_id: OBI_0000716
nucleic_acid_term_id: SO_0000352
Design description: ChIP-Seq Analysis of H3K27ac in Human Liver Tissue. Sequencing was done on the Illumina HiSeq 2000 platform.
Library name: AY369
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUCSD%2FEXPERIMENT%2FEDACC.19824
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUCSD%2FSAMPLE%2FEDACC.15104
****************
For data usage terms and conditions, please refer to:
http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies
****************
Data processing
Various levels of processed data files will be made available as this project proceeds.
Submission date
Jan 12, 2015
Last update date
Apr 19, 2017
Contact name
UCSD AND SALK
Organization name
University of California, San Diego
Street address
Health Sciences Drive
City
La Jolla
State/province
CA
ZIP/Postal code
92092
Country
USA
Platform ID
GPL11154
Series (1)
GSE16256
UCSD Human Reference Epigenome Mapping Project
Relations
BioSample
SAMN01881963
Supplementary data files not provided
Processed data not provided for this record
Raw data not provided for this record
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