Applications - Overview

The Genome Sequencer FLX System provides the power to address a broad range of applications in diverse research fields. The tremendous versatility of the system is based on the unique combination of read length, throughput, and read accuracy. This facilitates the excellent performance of the system and makes the Genome Sequencer FLX System a technology platform that enables groundbreaking research in various fields, as already proven by numerous publications in peer-reviewed journals. The following table presents an extensive list of applications supported by the Genome Sequencer FLX System's increasing array of methods and software solutions.

Research Field	Application	Method	Software
De Novo Sequencing	Whole Genomes of Plants, Yeasts, Funghi, Bacteria, Viruses	Shotgun Sequencing, Paired-End Sequencing, De Novo Assembly	GS De Novo Assembler
De Novo Sequencing	BACs, Fosmids, Plastids	Shotgun Sequencing, Paired-End Sequencing, De Novo Assembly	GS De Novo Assembler
Resequencing	Whole Genomes of Human, Plants, Yeasts, Funghi, Bacteria, Viruses	Shotgun Sequencing, Mapping to Reference Sequence	GS Reference Mapper
	BACs, Fosmids	Shotgun Sequencing, Mapping to Reference Sequence	GS Reference Mapper
	Genomic rearrangements	Paired-End Sequencing	GS Reference Mapper
	Disease Associated Regions (SNPs, indels)	Shotgun Sequencing of Long-Range PCR Products	GS Reference Mapper
	Disease Associated Regions (SNPs, indels)	Amplicon Sequencing	GS Amplicon Variant Analyzer
	Single Nucleotide Polymorphisms (SNPs)	Amplicon Sequencing	GS Amplicon Variant Analyzer
	Somatic Mutations	Amplicon Sequencing	GS Amplicon Variant Analyzer
Transcriptome Analysis	Full-length transcripts	Shotgun Sequencing	GS De Novo Assembler
	Expressed Sequence Tags (ESTs)	cDNA fragment sequencing	3rd party software
	5'-Transcript Ends (5'-RATE)	cDNA fragment sequencing	3rd party software
	Multiplex Sequencing of Paired-End Ditags (Singapore MS-PET)	cDNA fragment sequencing	3rd party software
	Serial Analysis of Gene Expression (SAGE)	cDNA fragment sequencing	3rd party software
Gene Regulation Studies	Small non coding RNAs	cDNA fragment sequencing	3rd party software
Gene Regulation Studies	Transcription Factor Binding Sites (ChIP-Sequencing)	cDNA fragment sequencing	3rd party software
Epigenetic Changes	DNA Methylation Pattern	Amplicon Sequencing	GS Amplicon Variant Analyzer
Epigenetic Changes	Nucleosome Modifications	DNA fragment sequencing	3rd party software
Metagenomics & Microbial Diversity	Analysis of Environmental DNA	Shotgun Sequencing	3rd party software
Metagenomics & Microbial Diversity	16S rRNA	Amplicon Sequencing	3rd party software
Paleogenomics	Whole Genome Sequencing of Ancient DNA	Shotgun sequencing	GS Reference Mapper

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