Case Study #1: SNP Analysis: In this benchmarking exercise Vmatch, running on a Pentium IV 1.7 GHz PC, outperforms the TimeLogic Decypher BLAST Solution by almost a full order of magnitude! (Under 3 hours versus 28 hours)

Case Study #2: Oligonucleotide Probe Design and Validation: In this study Vmatch demonstrates its ability to detect potential cross-hybridization, which may well prevent costly misinterpretation of oligoarray experiments!

Case Study #3: Short, nearly exact matches – Comparison with BLAST: In this study we have compared the performance of BLAST and Vmatch for short, nearly exact matches. Vmatch was found to significantly outperform BLAST for smaller query lengths when a few mismatches and gaps were allowed. For a length of 12 and allowing for upto 3 mismatches and gaps, Vmatch found > 50 times the hits reported by BLAST!

Case Study #4: Gene-Trap Sequence Tags Processing: In this study short tags are mapped against the human genome. Using a tool like BLAST invariably generates huge numbers of random hits that take up valuable disk space and subsequently need to be parsed-out using specialized scripts. Vmatch solves the problem by not generating the random hits in the first place!

All VMatch Case Studies: PDF file of all the above case studies