methBLAST -- a web tool for DNA methylation analysis
What you can do:
Find primer binding sites and analyze specificity of PCR based assays that use bisulfite converted DNA as input material, including bisulfite sequencing, methylation-specific PCR (MSP), combined bisulfite restriction analysis (COBRA), bisulfite-PCR-SCCP (BiPS), methylation-sensitive single-nucleotide primer extension (Ms-SNuPE).
Highlights:
- methBLAST is a sequence similarity search program designed to explore in silico bisulfite modified DNA (either or not methylated at its CpG dinucleotides).
- methBLAST is based on NCBI's standalone WWW BLAST server and searches custom databases, which simulates CpG methylation and bisulfite modification.
Keywords:
- PCR primers design tool
- PCR-based methylation assay
- gene methylation analysis
- DNA methylation
- Methylation-specific PCR
- Bisulfite-PCR-SSCP
- Methylation-sensitive single-nucleotide primer extension
- Combined bisulfite restriction analysis
- Bisulfite sequencing
- silico bisulfite modified DNA
- CpG dinucleotides
- CpG island
Literature & Tutorials:
Link to the article: methBLAST and methPrimerDB: web-tools for PCR based methylation analysis
This record last updated: 11-10-2006