SNP discovery using advanced algorithms and neural networks.
Forage is an application which uses two neural networks for detecting single nucleotide polymorphisms (SNPs). Potential SNP candidates are identified in multiple alignments. Each candidate is then represented by a vector of features, which is classified as SNP or monomorphic by the networks. A validated dataset of SNPs was constructed from experimentally verified SNP data and used for network training and method evalutation.


BACKGROUND
The package is available at biobase.biotech.kth.se/forage/
Unneberg
Per
P
Department of Biotechnology, Royal Institute of Technology, AlbaNova University Center, S-106 91 Stockholm, Sweden.
Strömberg
Michael
M
Sterky
Fredrik
F
D000465:Algorithms; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D004252:DNA Mutational Analysis / Q000379:methods*; D006801:Humans; D008969:Molecular Sequence Data; D016571:Neural Networks, Computer; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software