DNA/RNA Services: Sequencing

The CGF possesses state-of-the-art, next-generation sequencing equipment which features Illumina’s sequencing by synthesis (SBS) chemistry. Unlike traditional Sanger sequencing, human exomes can be generated in 18 hours on the NextSeq 500.

Technology and Equipment

  Illumina MiniSeq Illumina NextSeq Illumina MiSeq
Description 2-channel SBS chemistry.  Ideal for targeted gene expression, miRNA and small RNA analysis 2-channel SBS chemistry.  Ideal for whole transcriptome, targeted gene expression, miRNA, and small RNA analysis 4-channel SBS chemistry.  Ideal for targeted gene expression, miRNA, and small RNA analysis

 
Run Time 4-24 hours 12-30 hours 4-55 hours
Max Output 7.5 Gb of data 120 Gb of data 15 Gb of data
Max Read Length 2 x 150 bp 2 x 150 bp 2 x 300 bp
Max Reads 25 million single reads, 50 million paired end reads 130 million single reads, 400 million paired end reads

 

 25 million single reads, 50 million paired end reads

 

The CGF offers a concierge service to meet the individual researchers’ needs.  From tissue microdissection to the generation of sequence data.  Sequence data (fastQ files) undergoes initial secondary analysis and sample QC (HS metrics) which is given to the researcher upon request.

 

DNA/RNA Sequencing

Illumina NextSeq Sequencing Kits:
  • Mid Output Kits: max approximately 125 million reads
    • Mid Output 150 cycles: 1 x 150 bp single read or 2 x 75 bp paired end
    • Mid Output 300 cycles: 1 x 300 bp single read or 2 x 150 bp paired end
  • High Output Kits: max approximately 400 million reads
    • High Output 75 cycles: 1 x 75 bp single read or 2 x 35 bp paired end
    • High Output 150 cycles: 1 x 150 bp single read or 2 x 75 bp paired end
    • High Output 300 cycles: 1 x 300 bp single read or 2 x 150 bp paired end
Illumina MiSeq Sequencing Kits:
  • V2 Kits offer 12-15 million single reads, 24-30 million paired end reads
    • MiSeq Reagent V2 50 cycles: max 1 x 50 bp single read or 2 x 25 bp paired end
    • MiSeq Reagent V2 300 cycles:  max 1 x 300 bp single read or 2 x 150 bp paired end
    • MiSeq Reagent V2 500 cycles: max 1 x 500 bp single read or 2 x 250 bp paired end
  • V2 Micro kits offer up to 4 million single reads, 8 million paired end reads
    • MiSeq Micro Reagent V2 300 cycles: max 1 x 300 bp single read or 2 x 150 bp paired end
  • V2 Nano kits offer up to 1 million single reads, 2 million paired end reads
    • MiSeq Nano Reagent V2 300 cycles: max 1 x 300 bp single read or 2 x 150 bp paired end
    • MiSeq Nano Reagent V2 500 cycles: max 1 x 500 bp single read or 2 x 250 bp paired end
  • V3 kits offer 22-25 million single reads and 44-50 million paired end reads
    • MiSeq Reagent V3 150 cycles: max 1 x 150 bp single read or 2 x 75 bp paired end
    • MiSeq Reagent V3 600 cycles: max 1 x 600 bp single read or 2 x 300 bp paired end

 

Sequencing Data

Sequence data (fastQ files) undergoes initial secondary analysis and sample QC (HS metrics) which is given to the researcher upon request.  Data will be transferred to the researcher via the cloud or downloaded to a researcher-provided hard drive upon completion of the sequencing run.  Data will be stored locally by the CGF for 6 months.  At that time, the researcher will be notified that the CGF copy will be deleted.

We encourage our users to visit the HCC Bioinformatics website for contact information regarding sequence analysis services.

 

Fees/Costs

For pricing information, please contact Maureen Lyons.