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Status |
Public on May 26, 2016 |
Title |
MeDIP-Seq analysis of fetal brain tissue from H22911 (A02297) |
Sample type |
SRA |
|
|
Source name |
A02297-1
|
Organism |
Homo sapiens |
Characteristics |
submitted sample id: JOC85-DNA donor_id: H22911 Sex: female body site: Brain histological type: Brain tissue is tumor: No biomaterial_type: primary tissue tissue_type: fetal brain tissue
|
Extracted molecule |
genomic DNA |
Extraction protocol |
library construction protocol: Refer to document 'MeDIP-seq library construction protocol v2' from the Costello Lab at the Roadmap Epigenomics Project site, Experimental Protocols page (URL: http://www.roadmapepigenomics.org/protocols/type/experimental/)
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|
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Library strategy |
MeDIP-Seq |
Library source |
genomic |
Library selection |
5-methylcytidine antibody |
Instrument model |
Illumina HiSeq 2000 |
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|
Description |
design description: MeDIP-Seq analysis of fetal brain tissue from H22911 (A02297) using Illumina HiSeq 2000 library name: A02297 EXPERIMENT_TYPE: DNA Methylation EXTRACTION_PROTOCOL: Refer to document 'MeDIP-seq library construction protocol v2' by Costello Lab at the Roadmap Epigenomics Project site, Experimental Protocols page (URL: http://www.roadmapepigenomics.org/protocols/type/experimental/) EXTRACTION_PROTOCOL_TYPE_OF_SONICATOR: Diagenode Bioruptor EXTRACTION_PROTOCOL_SONICATION_CYCLES: 25 min MeDIP_PROTOCOL: Refer to document 'MeDIP-seq library construction protocol v2' by Costello Lab at the Roadmap Epigenomics Project site, Experimental Protocols page (URL: http://www.roadmapepigenomics.org/protocols/type/experimental/) MeDIP_PROTOCOL_DNA_AMOUNT: 2 ug MeDIP_PROTOCOL_BEAD_TYPE: Protein A/G Beads MeDIP_PROTOCOL_BEAD_AMOUNT: 100 ul MeDIP_PROTOCOL_ANTIBODY_AMOUNT: 1 ug MeDIP_ANTIBODY: Methylcytidine MeDIP_ANTIBODY_PROVIDER: Eurogentec MeDIP_ANTIBODY_CATALOG: BI-MECY-0100 MeDIP_ANTIBODY_LOT: 80808 **************** For data usage terms and conditions, please refer to: http://www.drugabuse.gov/funding/funding-opportunities/nih-common-fund/epigenomics-data-access-policies ****************
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Data processing |
Various levels of processed data files will be made available as this project proceeds.
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Submission date |
Jan 12, 2015 |
Last update date |
May 15, 2019 |
Contact name |
UCSF-UBC CENTER |
Organization name |
UCSF-UBC
|
Street address |
UCSF-UBC
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94143 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (1) |
GSE16368 |
UCSF-UBC Human Reference Epigenome Mapping Project |
|
Relations |
SRA |
SRX1157890 |
BioSample |
SAMN03416746 |