NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1582457 Query DataSets for GSM1582457
Status Public on Apr 19, 2017
Title Reference Epigenome: ChIP-Seq Analysis of H3K27ac in Human Sigmoid Colon Tissue; renlab.H3K27ac.STL001SG.02.01
Sample type SRA
 
Source name Sigmoid Colon tissue; renlab.H3K27ac.STL001SG.02.01
Organism Homo sapiens
Characteristics sra sample accession: SRS309358
disease: None
biomaterial_provider: Shin Lin, Stanford University
biomaterial_type: Primary Tissue
tissue_type: Sigmoid Colon
tissue_depot: N/A
collection_method: Autopsy
donor_id: STL001
donor_age: 3
donor_health_status: healthy, no prior medical history (NO diabetes, hypertension, coronary artery disease, cancer)
donor_sex: Male
donor_ethnicity: Caucasian and African American
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: 39133
chip_antibody_lot: 19208002
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 Genome Analyzer IIx
 
Description sample_term_id: UBERON_0001159
assay_term_id: OBI_0000716
nucleic_acid_term_id: SO_0000352
Design description: ChIP-Seq Analysis of H3K27ac in Human Sigmoid Colon Tissue. Sequencing was done on the Illumina Genome Analyzer IIx platform.
Library name: AK229
EDACC Genboree Experiment Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUCSD%2FEXPERIMENT%2FEDACC.19828
EDACC Genboree Sample Page:
http://genboree.org/java-bin/project.jsp?projectName=XML%20Submissions%2FUCSD%2FSAMPLE%2FEDACC.12265
****************
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 GPL10999
Series (1)
GSE16256 UCSD Human Reference Epigenome Mapping Project
Relations
BioSample SAMN00855407

Supplementary data files not provided
Processed data not provided for this record
Raw data not provided for this record

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