Multiplex sequencing by hybridization

One of the limitations of classical sequencing by hybridization (SBH) is th e inefficient use of probes in the "all k-mers" array, This limitation occu rs due to the relatively short length (roughly rootC) of target that may be reconstructed by an array with C probes. We propose a new strategy, multip lex sequencing by hybridization, that greatly increases the efficiency of t arget reconstruction. In the typical multiplex SBH method, many different t arget sequences are simultaneously reconstructed (as compared to a single s equence in classic SBH). This is accomplished by pooling the target sequenc es and performing several hybridization experiments, This procedure makes m ore efficient use of probes so that the combined length of sequence reconst ructed per DNA array increases significantly as compared to classical SBH.