RNA Services: Sequencing

Other RNA Services

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The CGF possesses state-of-the-art next generation sequencing equipment which employs massively parallel sequencing of small nucleic acid fragments to generate nearly complete coverage of whole genomes at greater than 99% accuracy. Unlike traditional Sanger sequencing, entire human genomes can be generated in less than two weeks.

The 5500 SOLiD sequencing system is the workhorse of our sequencing laboratory and can be used for the following applications:

  • Exome and targeted resequencing, allowing scientists to capture or target only the regions of interest of the human genome and then use high-throughput sequencing to assess the genetic variation within the captured DNA fragments.
  • Whole transcriptome analysis, allowing for conservation of strandedness of cDNA, allowing discernment between overlapping RNAs transcribed from the sense or antisense strand and multiplexing/sequencing of multiple RNA libraries simultaneously.
  • Small RNA analysis, which is a hypothesis-neutral method, provides whole genome analysis of expression patterns enabling the discovery of novel RNA without the probe bias of microarrays.
  • Chromatin immunoprecipitation sequencing (ChIP-SEQ). Sequencing of millions of ChIP-enriched DNA fragments using next generation sequencing technology enables cost-effective and precise analysis of the binding sites of transcription factors, replication and transcriptional machinery, structural proteins such as histones, as well as the impact of protein modifications on genome occupancy.

Affymetrix GeneChip Scanner 3000 7GThe Ion Torrent Personal Genome Machine is geared towards high quality, longer reads, and fast turnaround time. Specific applications include de novo viral and microbial sequencing and resequencing, as well as human scale amplicon resequencing. To find out more about the CGF sequencing capabilities or to design a study with the CGF, please contact Maureen Lyons or Patricia Petrosko.

Technology and Equipment

SOLiD System

Life Technologies SOLiD System

The 5500 W Series Genetic Analysis Systems are highly accurate, massively parallel next-generation sequencing platforms that support a wide range of research applications such as exome sequencing and RNA-Seq on a pay-per-lane basis. With platform-optimized sample preparation, individually configurable sequencing lanes, superior sequencing chemistry, and biologist-friendly data analysis solutions, the 5500 W Series Genetic Analysis Systems offer the utmost in flexibility and accuracy.

Ion Torrent

Ion TorrentIon Torrent™ uses a new sequencing technology that brings the transformative power of the semiconductor to the life sciences.

Ion Torrent™ Technology directly translates chemically encoded information (A, C, G, T) into digital information (0, 1) on a semiconductor chip. This approach marries simple chemistry to proprietary semiconductor technology – the result is a sequencing technology that is simpler, faster, more cost effective and scalable than any other technology available.