METHODS AND TOOLS FOR NUCLEIC ACID SEQUENCE ANALYSIS SELECTION AND GENERATION

摘要

The present invention provides methods and means for analyzing, designing, selecting and generating oligomer sequences, such as those for use in multiplex array-based nucleic acid probe systems, down to the selection of a single pair of optimal primer/target oligomers. Sequences are represented by a function of sequence context, called the context functional descriptor. In addition to the consideration of base pairing and nearest-neighbor analysis, the present computational methods incorporate the use of context functional descriptors and correlation matrices to account for higher-order thermodynamic interactions between nucleic acid sequences.