Difference between revisions of "Sequencing"

Revision as of 13:11, 15 September 2008

Sequencing Service

CAGT has two high-throughput Solexa Genome Analyzers 2.0 (Illumina), which are currently being used for a variety of applications, including ChIP-Seq, miRNA sequencing and expression sequencing. Each next-generation sequencer can process up to 16 samples per week, with a data yield of approximately 10 million reads per sample. Read lengths are 17, 26 or 36 bases.

This sequencing technology consists of binding randomly fragmented DNA to an optical flowcell . Templates are “sequenced” by incorporating fluorescently labeled nucleotides in a “Sequencing-By-Synthesis” reaction. A detailed description of this process can be found here: http://illumina.com/pages.ilmn?ID=203

The system consists of a cluster generation station and a Genome Analyzer, both of which work in concert to generate and analyze flowcells. An overview of the Illumina Genome Analyzer system can be found at the Illumina website: http://illumina.com/pages.ilmn?ID=204

Illumina currently provides reagents and support for a five major sequencing applications:

• ChIP Seq
• Small RNA Sequencing
• Digital gene expression
• Genome sequencing and resequencing
• Paired End Sequencing

Other DNA Sequencing applications: The following applications have been published but do not yet have kits from Illumina.

• Genotyping: Protocols are being developed for detection of SNPs, chromosomal rearrangements and other genotyping applications.
  
• Whole Transcriptome Analysis: Sequencing the entire transcriptome can reveal valuable information about exon boundaries and splice variants that may be missed by microarray analysis or Digital Gene Expression. Kits for whole transcriptome analysis are expected to be available from Illumina soon.
  

Protocols

Protocols for all of the supported technologies can be found on the Illumina website, or by contacting Illumina at (800) 809-4566. http://illumina.com/pagesnrn.ilmn?ID=70#252