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Status |
Public on Jan 17, 2018 |
Title |
Dog_FCR_Bis_PCR_1 |
Sample type |
SRA |
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Source name |
Buccal
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Organism |
Canis lupus familiaris |
Characteristics |
breed: FCR tissue: buccal Sex: F age: 0.25
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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 MiSeq 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 MiSeq instrument using v3 chemistry.
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Library strategy |
OTHER |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina MiSeq |
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Description |
Bis-PCR
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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: canFam 3.1 Supplementary_files_format_and_content: chromosome,position,methylation count,total count
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Submission date |
Aug 25, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Robert Lowe |
Organization name |
QMUL
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Department |
Blizard Institute
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Street address |
4 Newark Street
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City |
London |
ZIP/Postal code |
E1 2AT |
Country |
United Kingdom |
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Platform ID |
GPL22370 |
Series (2) |
GSE86058 |
The rate of ageing-associated DNA methylation dynamics is a molecular readout of lifespan variation amongst mammalian species [Bis-PCR: dog] |
GSE86059 |
The rate of ageing-associated DNA methylation dynamics is a molecular readout of lifespan variation amongst mammalian species |
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Relations |
BioSample |
SAMN05660002 |
SRA |
SRX2053514 |
Supplementary file |
Size |
Download |
File type/resource |
GSM2292697.txt.gz |
16.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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