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Sample GSM1357156 Query DataSets for GSM1357156
Status Public on Mar 26, 2014
Title Bisulfite-Seq analysis of RRBS_Lib 361 derived from human colonic mucosa cells; RRBS_Lib 361
Sample type SRA
Source name Primary colonic mucosal tissue obtained during surgery and confirmed by pathology examination to be healthy tissue; RRBS_Lib 361
Organism Homo sapiens
Characteristics sra sample accession: SRS406758
collection_method: Surgery
donor_health_status: NL colonic mucosa, colon rmvd as part of abmnl Sarc
disease: NL colonic mucosa, colon rmvd as part of abmnl Sarc
tissue_type: Colonic Mucosa
donor_ethnicity: Caucasian
donor_sex: Female
biomaterial_type: Primary Tissue
tissue_depot: Colon
donor_id: 155
biomaterial_provider: MGH
donor_age: 56.0 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: UBERON_0000317
assay_term_id: OBI_0001862
nucleic_acid_term_id: SO_0000352
Design description: RRBS REMC Sequencing on Illumina
Library name: RRBS_Lib 361
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 SAMN01997267

Supplementary data files not provided
Raw data provided as supplementary file

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