methPrimer statistics

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Citations per year

Citations chart

Popular tool citations

chevron_left File format conversion Bisulfite primer design File parsing-extraction chevron_right
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Tool usage distribution map

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Associated diseases

Associated diseases


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methPrimer specifications


Unique identifier OMICS_01841
Name methPrimer
Alternative name methPrimerDB
Interface Web user interface
Restrictions to use None
Input data An original DNA sequence.
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus


  • MethBlat
  • MethFasta
  • MethSequence


  • person_outline Jo Vandesompele <>
  • person_outline Filip Pattyn <>
  • person_outline Jasmien Hoebeeck <>
  • person_outline Piet Robbrecht <>
  • person_outline Evi Michels <>

Additional information

methPrimer 1.0 is available at

Publications for methPrimer

methPrimer in pipelines

PMCID: 5502268
PMID: 28740500
DOI: 10.3389/fpls.2017.01178

[…] providing plant materials., , , , , , , the supplementary material for this article can be found online at: […]

PMCID: 5515838
PMID: 28720816
DOI: 10.1038/s41598-017-05961-2

[…] was isolated and treated with bisulfate using the epitect® bisulfite kit (qiagen, usa) according to the manufacturer’s instructions. the primers for detection of dna methylation were designed using methprimer ( and modified using primer3web ( pcr products were cloned into a pgem-t vector (promega, usa) and subsequently sequenced using […]

PMCID: 5560095
PMID: 28671686
DOI: 10.1038/ng.3906

[…] was utilized for fine-mapping of methylation patterns in cpcdh candidate sequences. genomic dna (1 μg) was bisulfite-converted using the epitect bisulfite kit (qiagen). primers were designed in methprimer and bisulfite-converted dna was amplified and multiplexed by high throughput pcr using a fluidigm accessarray instrument. pcrs were performed in duplicate and the duplicates pooled. […]

PMCID: 5589591
PMID: 28903352
DOI: 10.18632/oncotarget.17081

[…] and co-expression information., phylogenetic tree was made using mega 6 after aligning the downloaded sequences in clustalw.we searchedwith interproscan [] in ebi, we identify cpg islands using methprimer [], and finally searched snps and cnvs from dbsnp and dgv respectively., molecular docking analysis were performed using moe (molecular operating environment) software []. protein […]

PMCID: 5638567
PMID: 29023530
DOI: 10.1371/journal.pone.0186411

[…] corporation) and bioedit [] were employed for sequence alignment and visualization. the prediction of cpg islands was conducted using putative promoter regions sequences of arα with the online tool methprimer ( []., a 118 bp cdna fragment containing the heterozygous site (site 1947, []) was amplified with the same primers as used […]

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methPrimer in publications

PMCID: 5953930
PMID: 29765100
DOI: 10.1038/s41598-018-26049-5

[…] dna (50 ng/μl), 10 μl of 2× prime taq premix, 1 μl of upstream primer (5 pmol/μl), 1 μl of downstream primer (5 pmol/μl), and 7 μl of depc-treated water. primers for bsp were designed using the methprimer ( (see supplementary table ). bsp amplification products were purified using the minibest agarose gel dna extraction kit (takara bio inc., kusatsu, […]

PMCID: 5951854
PMID: 29760437
DOI: 10.1038/s12276-018-0091-4

[…] next, we examined whether cd82 dna methylation directly influenced mtb-induced cd82 expression. portions of the cd82 gene, spanning positions −127 to −286 bp or −2194 to −2351 bp, were analyzed with methprimer, which is a cpg island prediction program ( the results showed that this fragment contained several cpg-rich regions (fig. , upper). bisulfite […]

PMCID: 5946489
PMID: 29747653
DOI: 10.1186/s13046-018-0754-y

[…] 1.8 μg dna was treated with sodium bisulfite by using a zymo dna modication kit (zymo research, hornby, canada) and amplified by specific bisulfite sequencing (bs) primers that were designed by using methprimer (, ucsf) [] and listed in additional file : table s1. the amplified pcr products were ligated into yt&a vector (yeastern biotech, taiwan). eight indivi […]

PMCID: 5921809
PMID: 29699590
DOI: 10.1186/s13046-018-0764-9

[…] pcr by amplified the genomic dna after standard sodium bisulfate modification. primer sequences which specifically recognized either the methylated or unmethylated tgfbr2 promoter were designed with methprimer ( the pcr conditions were: 95 °c for 5 min, followed by 40 cycles of 95 °c for 15 s, 57 °c for 30s, 72 °c for 30s; and a final […]

PMCID: 5940382
PMID: 29765549
DOI: 10.18632/oncotarget.25115

[…] (qmsp). bisulfite treated-based methylation-specific primers and relevant locked nucleic acid (lna) dual labeled hydrolysis probes specific for methylated t-ucrs 160, 283 and 346 were designed using methprimer [], following the ncbi library sequences ( ucbase 2.0 ( was also used for the identification of possible snps in uc160, uc283 […]

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

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