characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2018-01-31T17:02:40Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2017-02-28T15:42:49Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA101364418
characteristics.characteristic: External Id
characteristics.text: Department of Infection, UCL
characteristics.characteristic: INSDC center name
characteristics.text: 2018-01-31T17:02:40Z
characteristics.characteristic: INSDC first public
characteristics.text: 2017-02-28T15:42:49Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS1573267
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-5495:CTVT5 R
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: dog
characteristics.characteristic: common name
characteristics.text: Protocols: Biopsies of were collected from dogs undergoing diagnostic assessment at the Department of Surgery and Obstetrics and Gynaecology, Faculty of Veterinary Medicine, University of Messina, Italy. All the procedures on animals treated in Italy, including housing, conformed to EU regulations of animal welfare and are approved by the Italian Ministry of Health being in agreement with the directive D.P.C.M. of 28th February 2003. Qiagen AllPrep Micro kit according to the manufacturer's protocol Sonication with the Diagenode Bioruptor. Following fragmentation (180-230 bp fragments), library preparation consists of DNA end repair, 3′-dA tailing and adapter ligation. DNA was incubated with 150 ng anti-5-methylcytidine at 4°C for 15 hrs using automation and manufacturer reagents and protocols (Diagenode). Following immunoprecipitation, DNA was incubated with 1 μg proteinase K (Diagenode) at 55°C for 15 mins then 95°C for 15 mins. Each sample was subject to quality control using quantitative PCR (qPCR) with primers designed to amplify methylated/unmethylated control DNA (see https://www.ncbi.nlm.nih.gov/pubmed/22402632 for details). After confirming enrichment of methylated DNA in the immunoprecipitated fraction, DNA was purified using AmpureXT magnetic beads and amplified by 12 cycles adapter-mediated PCR. PCR products were purified using Ampure magnetic beads and run out on 2% low-melting point agarose gel. PCR fragments were excised and purified (QIAGEN). The resulting libraries (300-350 bp) were quality controlled using an Agilent 2100 Bioanalyzer with DNA1000 chips.
characteristics.characteristic: description
characteristics.text: canine transmissible veneral tumour
characteristics.characteristic: disease
characteristics.text: CTVT5
characteristics.characteristic: individual
characteristics.text: Canis lupus familiaris
characteristics.characteristic: organism
characteristics.text: Canis lupus familiaris
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9615
characteristics.characteristic: organism
characteristics.text: Canis lupus familiaris
characteristics.characteristic: scientific_name
characteristics.text: CTVT5 R
characteristics.characteristic: title
characteristics.text: Regressive
characteristics.characteristic: tumor grading