OligoFaktory: a visual tool for interactive oligonucleotide design.
CONCLUSIONS
The OligoFaktory is a set of tools for the design, on an arbitrary number of target sequences, of high-quality long oligonucleotide for micro-array, of primer pair for PCR, of siRNA and more. The user-centered interface exists in two flavours: a web portal and a standalone software for Mac OS X Tiger. A unified presentation of results provides overviews with distribution charts and relative location bar graphs, as well as detailed features for each oligonucleotide. Input and output files conform to a common XML interchange file format to allow both automatic generation of input data, archiving, and post-processing of results. The design pipeline can use BLAST servers to evaluate specificity of selected oligonucleotides.


BACKGROUND
The web portal http://ueg.ulb.ac.be/oligofaktory/; the software for Macintosh: http://www.oligofaktory.org/
Schretter
Colas
C
Unit of Evolutionary Genetics, Institute of Molecular Biology and Medicine, Free University of Brussels, Gosselies, Belgium. cschrett@ulb.ac.be
Milinkovitch
Michel C
MC
D000465:Algorithms; D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D003196:Computer Graphics; D017931:DNA Primers / Q000737:chemistry; D005821:Genetic Techniques; D016247:Information Storage and Retrieval; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis; D009841:Oligonucleotides / Q000737:chemistry*; D016133:Polymerase Chain Reaction; D011381:Programming Languages; D034741:RNA, Small Interfering / Q000737:chemistry; D012984:Software; D014584:User-Computer Interface
D017931:DNA Primers; D009841:Oligonucleotides; D034741:RNA, Small Interfering