Fields of Biology
Model & Non-Model Organisms, Systems Biology
Overview
The speed and efficiency of high throughput DNA sequencing makes systems-level genomic analysis accessible to a wide research community. Featuring a unique combination of long reads and outstanding data quality, the GS FLX System is the only technology available that addresses the broad range of research questions posed in systems biology.
Applications
Whole genome sequencing - Eukaryote & Prokaryote Whole genome
The GS FLX System enables comprehensive, bias-free whole genome de novo sequencing and resequencing. Long Tag Paired-end reads of 100 to 200 bases with jumping distances between 3 and 20kb facilitate scaffold construction for assembly of large complex genomes.
Transcriptome sequencing
Focus on the coding genome by sequencing full-length cDNA libraries or ESTs to obtain a detailed gene expression profile of an organism. The sensitivity and long reads of the 454 Sequencing system ensure the comprehensive detection of novel expressed genes and genetic variations.
Genetic variation detection
The GS FLX System enables straightforward identification of genetic variations. Effectively identify SNPs, insertions, deletions, structural rearrangements and copy number variations globally or within specific target regions by shotgun sequencing PCR products, cDNA libraries, or DNA fragments captured using NimbleGen's Sequence Capture array.
Epigenetic studies
Take advantage of the GS FLX System's long reads and exceptional data quality for simultaneous analysis of genetic and epigenetic parameters. Characterize alterations in methylation and acetylation patterns through bisulfite sequencing or ChIP sequencing of amplified or pulled-down target regions.
Metagenomics
Characterize the molecular signature of an environment by sequencing its metagenome or metatranscriptome. The GS FLX System facilitates fast and accurate identification of diverse members within microbial communities.
Small RNA analysis
Discover novel small RNAs, explore small RNA biology, or characterize differential expression profiles by sequencing and comparing small RNA transcriptomes. 454 Sequencing system's highly accurate, long reads ensure that all classes of small RNAs are captured.
Publications
- Satkoski et al. Pyrosequencing as a method for SNP identification in the rhesus macaque (Macaca mulatta). BMC Genomics 9:256. May 29, 2008.
- Lynch et al. A genome-wide view of the spectrum of spontaneous mutations in yeast. PNAS 105: 9272-9277. July 8, 2008.
- Turnbaugh et al. An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444: 1027-1031. December 21, 2006.