ArticleBMC bioinformatics2010
SNP-RFLPing 2: an updated and integrated PCR-RFLP tool for SNP genotyping.
Article in BMC bioinformatics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
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- New Transcriptome-Based SNP Markers for Noug (Genes · 2020Article
- Cis-regulatory CYP6P9b P450 variants associated with loss of insecticide-treated bed net efficacy against Anopheles funestus.Nature communications · 2019Article
- Genomic Variants Among ThreatenedG3 (Bethesda, Md.) · 2019Article
- REHUNT: a reliable and open source package for restriction enzyme hunting.BMC bioinformatics · 2018Article
- A machine learning approach for viral genome classification.BMC bioinformatics · 2017Article
- Article
- GESPA: classifying nsSNPs to predict disease association.BMC bioinformatics · 2015Article
- Improved candidate drug mining for Alzheimer's disease.BioMed research international · 2014Article
- SNP 1772 C > T of HIF-1α gene associates with breast cancer risk in a Taiwanese population.Cancer cell international · 2014Article
- A toolkit for bulk PCR-based marker design from next-generation sequence data: application for development of a framework linkage map in bulb onion (Allium cepa L.).BMC genomics · 2012Article
- Prognostic Significance of Genetic Polymorphisms rs3819024 (A/G) of Interleukin-17A Gene and rs763780 (C/T) of Interleukin-17F Gene in Oral Submucous Fibrosis and Oral Squamous Cell Carcinoma.Contemporary clinical dentistryArticle
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPCR-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.
resultsThe 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 prices are also provided to aid selection. Furthermore, the previously encountered updating problems for most SNP related databases are resolved by an on-line retrieval system.
conclusionsThe user interfaces for functional SNP analyses have been substantially improved and integrated. SNP-RFLPing 2 offers a new and user-friendly interface for RFLP genotyping that can be used in association studies and is freely available at http://bio.kuas.edu.tw/snp-rflping2.
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