F-SNP: computationally predicted functional SNPs for disease association studies
By Phil Hyoun Lee, Hagit Shatkay. Nucleic Acids Res., 2007
356 citations recorded by the source corpus.
The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from 16 bioinformatics tools and databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. As such, the database helps identify and focus on SNPs with potential deleterious effect to human health. In particular, users can retrieve SNPs that disrupt genomic regions known to be functional, including splice sites and transcriptional regulatory regions. Users can also identify non-synonymous SNPs that may have deleterious effects on protein structure or function, interfere with protein translation or impede post-translational modification. A web interface enables easy navigation for obtaining information through multiple starting points and exploration routes (e.g. starting from SNP identifier, genomic region, gene or target disease). The F-SNP database is available at http://compbio.cs.queensu.ca/F-SNP/.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/50894f7f1eddc8cd26fbab6a9768904cc06b0572
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Citations in the corpus
- dbNSFP: A Lightweight Database of Human Non-synonymous SNPs and Their Functional Predictions (2011, methodology): “In recent years, some Webservers have been developed to integrate searches or results from multiple bioinformatics tools, for example, the SeattleSeq Annotation server, F-SNP [Lee and Shatkay, 2008], SNPLogic [Pico et al.”
- ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data (2010, methodology): “We note that some exceptions exist (7), for example, the F-SNP tool (8) and Seattle Seq tool (http://gvs.”