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Sample GSM2792671 Query DataSets for GSM2792671
Status Public on Jan 17, 2018
Title NMR_Bis_PCR_7
Sample type SRA
 
Source name Liver
Organism Heterocephalus glaber
Characteristics tissue: Liver
age (wks): 41.6
Extracted molecule genomic DNA
Extraction protocol Targeted bisulfite PCR-based analysis was performed using the 48.48 layout on the Fluidigm C1 system (Fluidigm, USA), coupled with Illumina NextSeq sequencing. Bisulfite PCR primers were designed using Primer3 (PMID:17485472),
DNA was bisfulite converted (EpiTect, Qiagen) prior to amplification. Amplicons from a single sample were pooled and individually indexed to create a multiplex library prior to sequencing on an Illumina NextSeq instrument.
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina NextSeq 500
 
Data processing Library strategy: Bis-PCR
Bismark (v0.13.1) was used to align reads to the reference genome camFam using Bowtie2
Methylation counts were extracted using https://bitbucket.org/lowelabqmul/methylation-extractor
Genome_build: hetGla2
Supplementary_files_format_and_content: chromsome,position,methylation count,total count
 
Submission date Sep 25, 2017
Last update date May 15, 2019
Contact name Robert Lowe
Organization name QMUL
Department Blizard Institute
Street address 4 Newark Street
City London
ZIP/Postal code E1 2AT
Country United Kingdom
 
Platform ID GPL24046
Series (2)
GSE86059 The rate of ageing-associated DNA methylation dynamics is a molecular readout of lifespan variation amongst mammalian species
GSE104215 The rate of ageing-associated DNA methylation dynamics is a molecular readout of lifespan variation amongst mammalian species [Bis-PCR: naked mole-rat]
Relations
BioSample SAMN07693501
SRA SRX3213583

Supplementary file Size Download File type/resource
GSM2792671_7_counts.txt.gz 1.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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