MethBLAST statistics

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MethBLAST specifications

Information


Unique identifier OMICS_26654
Name MethBLAST
Interface Web user interface
Restrictions to use None
Input data Some primer sequences.
Input format FASTA
Computer skills Basic
Maintained No

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Publication for MethBLAST

MethBLAST in publications

 (8)
PMCID: 4849114
PMID: 27144075
DOI: 10.4103/2141-9248.180272

[…] primer sequences based on the in silico change of the gene sequence obtained from pubmed (nc_000003.11), and second, by obtaining theoretical products and running primer tests of specificity in the methblast sequence similarity search program., in the polymerase chain reaction (pcr) analysis the primers employed for pparγ coactivator (pparg) m3 were: 5’-aagacggtttggtcgatc-3’ (forward) […]

PMCID: 3978871
PMID: 24134860
DOI: 10.1186/gm500

[…] sequenom massarray epityper (sequenom, san diego, usa), performed as previously described [,]. amplicons were designed using the sequenom epidesigner [] and massarray [], and tested in silico using methblast [] software. oligonucleotide sequences were prepared (see additional file : table s1) such that forward primer sequences contain a 10 bp tag (aggaagagag) at their 5′ ends, and reverse […]

PMCID: 3797819
PMID: 24146874
DOI: 10.1371/journal.pone.0076474

[…] dalian) and inserted into pgem-t easy vector (promega). five clones for every cell line were randomly selected and sequenced. the methylated sequence of octn2 was checked for alignment using methblast., according to the predicted cpg islands in the genomic sequence, we divided the promoter into three regions. three regions containing different cpg islands were amplified (primers listed […]

PMCID: 3591123
PMID: 23484077
DOI: 10.1155/2013/129715

[…] modified dna (either methylated or not at its cpg dinucleotides) was used to confirm the amplification specificity of the designed primer. the primers were blast before synthesised, using the methblast software (http://medgen.ugent.be/methblast/). , pcr amplification and ms-hrm analysis were performed using cfx real time pcr detection system (bio-rad laboratories, usa). the pcr […]

PMCID: 3517769
PMID: 23176198
DOI: 10.1186/1471-2407-12-551

[…] 3) minimization of formation of intramolecular interactions within the primer (hairpins), dimerization with itself (self-dimers) or with primers for the other targets (cross-dimers) and 4) a methblast search at http://medgen.ugent.be/methblast/ to ensure target specificity of primers., following primer redesign, the pcr efficiencies increased from 75% to 95% and 52% to 105% for cadm1 […]


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MethBLAST institution(s)
Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium; Belgian EMBnet Node, Université libre de Bruxelles, Campus de la Plaine, Brussels, Belgium
MethBLAST funding source(s)
Supported by GOA-grant 12051203, FWO-grant G.0185.04, G.1.5.243.05 and G.0106.05, and a research grant from the Childhood Cancer Fund 'Kinderkankerfonds'.

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