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Sample GSM1357151 Query DataSets for GSM1357151
Status Public on Mar 26, 2014
Title Bisulfite-Seq analysis of RRBS_Lib 357 derived from human hippocampus middle cells; RRBS_Lib 357
Sample type SRA
Source name specified brain region obtained by post-mortem collection in a longitudinal study; RRBS_Lib 357
Organism Homo sapiens
Characteristics sra sample accession: SRS255276
collection_method: Post-Mortem
donor_health_status: no AD evident at demise
disease: no AD evident at demise
tissue_type: Hippocampus Middle
donor_ethnicity: NA
donor_sex: Male
biomaterial_type: Primary Tissue
tissue_depot: Brain
donor_id: 149
biomaterial_provider: Rush University Medical Center
donor_age: 81.0 Years
bisulfite_conversion_protocol: 2x5hrs Epitect Kit
dna_preparation_initial_dna_qnty: 30-300 ng
extraction_protocol_sonication_cycles: NA
dna_preparation_adaptor_ligation_protocol: T4 Ligase (2,000U/ul) 16C o/n
dna_preparation_adaptor_sequence: Illumina TruSeq adapter
library_generation_pcr_r_primer_sequence: Illumina TruSeq primer
dna_preparation_post-ligation_fragment_size_selection: 150-400
bisulfite_conversion_percent: 99.5%
extraction_protocol: Standard Protocol (Smith et al., Methods 48, 226-232)
library_generation_pcr_primer_conc: 25uM
dna_preparation_fragment_size_range: 30-280
experiment_type: DNA Methylation
library_generation_pcr_thermocycling_program: Smith et al., Methods 48, 226-232
library_generation_pcr_product_isolation_protocol: SPRI Beads
library_generation_pcr_f_primer_sequence: Illumina TruSeq primer pair
library_generation_pcr_template_conc: NA
library_generation_pcr_polymerase_type: Pfu Turbo Cx hot start
library_generation_pcr_number_cycles: 11-15
extraction_protocol_type_of_sonicator: NA
Extracted molecule genomic DNA
Extraction protocol Library construction protocol: Smith et al., Methods 48, 226-232
Library strategy Bisulfite-Seq
Library source genomic
Library selection Reduced Representation
Instrument model Illumina HiSeq 2000
Description sample_term_id: EFO_0000530
assay_term_id: OBI_0001862
nucleic_acid_term_id: SO_0000352
Design description: RRBS REMC Sequencing on Illumina
Library name: RRBS_Lib 357
EDACC Genboree Experiment Page:
EDACC Genboree Sample Page:
For data usage terms and conditions, please refer to:
Data processing Various levels of processed data files will be made available as this project proceeds.
Submission date Mar 25, 2014
Last update date Jan 29, 2015
Organization name Broad Institute
Street address -
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platform ID GPL11154
Series (1)
GSE17312 BI Human Reference Epigenome Mapping Project
BioSample SAMN00691454

Supplementary data files not provided
Raw data provided as supplementary file

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