Bioinformatics Links Directory : Sequence PolymorphismsLinks to various sequence polymorphism databases and resources concerning SNPs, short deletion, and insertion polymorphisms.StSNP- (Found July 2, 2008 ) StSNP (Structure SNP) is a server which provides the ability to analyze and compare human nonsynonymous SNPs (nsSNP) in protein structures, protein complexes, protein-protein interfaces and metabolic networks.http://glinka.bio.neu.edu/StSNP/index_2006.html The Mouse SNP Database- (Found July 2, 2008 ) Free access to a database developed by Roche.http://mousesnp.roche.com PolyBayes- (Found July 2, 2008 ) UNIX-based SNP discovery from redundant sequences; integrated with PhredPhrapConsed infrastructure (see DNA -- Contig Assembly); free for non-commercial use.http://genomeold.wustl.edu/groups/informatics/software/polybayes/ PDA- (Found July 2, 2008 ) PDA (Pipeline Diversity Analysis) is a server which searches for polymorphic sequences in large databases, and estimates their genetic diversity. Results contain sequence alignments (generated by ClustalW) and include statistics on polymorphism, synonymous and non-synonymous substitutions, linkage disequilibrium, and codon bias for your alignment. The full results set is also available for download as a MySQL database.http://pda.uab.es/pda2/ PANTHER Tools- (Found July 2, 2008 ) The PANTHER (Protein ANalysis THrough Evolutionary Relationships) Classification System is a unique resource that classifies genes by their functions, using published scientific experimental evidence and evolutionary relationships to predict function. The PANTHER research tools allow you to score proteins against the PANTHER HMM library, use PANTHER to do gene expression analyses, and download PANTHER tools and data.http://www.pantherdb.org/tools/ dbSNP- (Found July 2, 2008 ) Repository for both single base nucleotide subsitutions and short deletion and insertion polymorphisms; NCBI collaboration with NHGRI.http://www.ncbi.nlm.nih.gov/SNP/ DNA Methylation Database- (Found July 2, 2008 ) The database contains information about the occurrence of methylated cytosines in the DNA.http://www.methdb.de/ FastSNP- (Found July 2, 2008 ) Function Analysis and Selection Tool for Single Nucleotide Polymorphisms (FastSNP) allows users to identify and prioritize SNPs that are likely to have functional effects.http://fastsnp.ibms.sinica.edu.tw/pages/input_CandidateGeneSearch.jsp GEPAS- (Found July 2, 2008 ) The Gene Expression Pattern Analysis Suite (GEPAS) is a collection of tools for the analysis of microarray data. GEPAS includes tools for data pre-processing, clustering, differential gene expression, predictors, array CGH and functional annotation.http://gepas.bioinfo.cipf.es/ GVS- (Found July 2, 2008 ) Genome Variation Server (GVS) is a database that provides access to human genotype data found in dbSNP, and tools for the analysis of genotype data.http://gvs.gs.washington.edu/GVS/index.jsp |