The 3500 platform can run a wide variety of applications — including de novo sequencing and resequencing (mutational profiling) — as well as microsatellite analysis, MLPA, LOH, MLST and SNP validation or screening. The majority of applications can be run on a single polymer and capillary array, and the 3500 Series Data Collection Software integrates seamlessly with several downstream Applied Biosystems™ software packages to provide comprehensive analysis of genetic data:

• Variant Reporter™ Software — designed for mutation detection and analysis, SNP discovery and validation, and sequence confirmation.
• Sequencing Analysis Software with KB™ Basecaller — designed to analyze, display, edit, save and print sequencing data.
• SeqScape™ Software — used for mutation detection and library-based allele identification.
• GeneMapper™ Software — an ideal tool for genotyping, allele calling, fragment sizing and SNP analysis.