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1 2008

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GenFoSS - java application for presentation of coding stretches of never born proteins

Piwowar M., Matczyńska E., Ochlawski P., Kosibowicz M., Kość D., Swatowski M., Więcek P., Szepieniec T.

Bio-Algorithms and Med-Systems

2008

Vol. 4, no. 7

9--17

Application of genomes analysis results with respect to project of "never born protein" (NBP) is presented in this paper. GenFoSS application concerns visualisation of genomic sequence stretches that could encode proteins that are not observed in the Nature. The sequences of these proteins were generated randomly aimed to recognize the proteins of potential pharmacological activity. Identification of sequences similar to these of NBP can be viewed by GenFoSS application. GenFoSS gives information about sequence frequencies, percent identity, percent of similarity of alignments and E-value for aligned sequences. Comparison between two chromosomes in common organism and between different genomes as well can be done by these applications. There are also possibilities to check codon frequencies of nucleotide sequences that were found as a stretch of NBP.