Whole Transcriptome Sequencing

Service icon For insights into cellular activities, transcriptomes offer a dynamic view.

The OICR Genomics team has extensive experience creating transcriptomes from both intact and highly degraded FFPE materials. Between whole transcriptomes and targeted transcriptomes, we can match the right kit to your application.

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Capabilities

Service Applications Description
Stranded whole transcriptome
  • Gene expression
  • Coding and non-coding RNA
  • Most economical
  • As little as 5ng input, 25ng recommended
Whole transcriptomes are the main workhorse of an RNA lab. We've performed internal validations on the latest whole transcriptome products - down to 5ng of RNA input - so that you don't have to.
RNA exomes, transcriptome capture
  • Expression of coding genes
  • Allele specific expression
  • Moderate cost
RNA capture methods can focus sequencing onto coding genes only, reducing the number of reads required to produce robust data and potentially saving on overall project costs. The additional depth afforded in transcriptome capture projects allow informatics teams to study allele specific expression in greater detail.
Standard Transcriptomes
  • Kapa RNA Hyper
  • HiSeq 2500 sequencing, 2x100
  • >30 million read pairs
  • >25ng of intact or FFPE RNA required
Used for quantifying expression of coding and non-coding RNAs using a wide variety sample inputs. Standard transcriptomes aim to provide at least 30 million read pairs (60 million reads). Intact RNA from fresh or fresh frozen samples or degraded RNA from archival specimens is compatible with this assay. Aligned BAM files are available with a 6-8 week turnaround time.
Targeted Transcriptomes
  • Illumina RNA Exome
  • >30 million read pairs
  • HiSeq 2500 sequencing, 2x100
  • >40ng of intact or FFPE RNA required
When applications are interested in deeper analysis of coding RNAs alone, a kit such as Illumina's RNA Exome (formerly RNA Access) can be used to create more specific sequencing libraries. Targeted transcriptomes aim to provide at least 30 million read pairs (60 million reads). Intact RNA from fresh or fresh frozen samples or degraded RNA from archival specimens is compatible with this assay. Aligned BAM files are available with a 6-8 week turnaround time.
Low input transcriptomes
  • Kapa RNA Hyper
  • >30 million read pairs
  • HiSeq 2500 sequencing, 2x100
  • As little as 1ng of intact or FFPE RNA required
Reserved for the most limited samples, our in-house developed protocols can create sequencing libraries from as little as 1-2ng of FFPE derived RNA. This application is suitable for projects investigating rare diseases where banked specimens are in limited supply or their quality has been affected by age. Targeted transcriptomes aim to provide at least 30 million read pairs (60 million reads), with aligned BAM files typically available with a 8-10 week turnaround time due to occasional need for manual processing, troubleshooting, or other unknown delays associated with difficult samples.