SNP-RFLPing 2: an updated and integrated PCR-RFLP tool for SNP genotyping

Background: PCR-restriction fragment length polymorphism (RFLP) assay is a cost-effective method for SNP genotyping and mutation detection, but the manual mining for restriction enzyme sites is challenging and cumbersome. Three years after we constructed SNP-RFLPing, a freely accessible database and analysis tool for restriction enzyme mining of SNPs, significant improvements over the 2006 version have been made and incorporated into the latest version, SNP-RFLPing 2. Results: The primary aim of SNP-RFLPing 2 is to provide comprehensive PCR-RFLP information with multiple functionality about SNPs, such as SNP retrieval to multiple species, different polymorphism types (bi-allelic, tri-allelic, tetra-allelic or indels), gene-centric searching, HapMap tagSNPs, gene ontology-based searching, miRNAs, and SNP500Cancer. The RFLP restriction enzymes and the corresponding PCR primers for the natural and mutagenic types of each SNP are simultaneously analyzed. All the RFLP restriction enzyme pr...

• Type: Journal
• Year: 2010
• Where: BMCBI
• Authors: Hsueh-Wei Chang, Yu-Huei Cheng, Li-Yeh Chuang, Cheng-Hong Yang
• Keywords: BMCBI 2010, Enzyme, Genotyping, RFLP Restriction