Next Generation Sequencing Using Illumina


The TCGA operates Illumina MiSeq and NovaSeq 6000 instruments for short-read next generation sequencing (NGS) on a variety of sample types and for a range of applications including targeted genotyping, 16s metagenomics, transcriptomics, small RNA analysis, single-cell sequencing, epigenetics and whole genome sequencing. Our standard NGS service includes library QC, sequencing of user-prepared libraries and QC of the data. For this standard service please complete the NGS Request Form and send it to tcga@dundee.ac.uk. A more comprehensive service, including library construction, can also be arranged, please contact the laboratory for a quote.

NovaSeq 6000
The Illumina NovaSeq 6000 is a scalable NGS instrument with enough capacity to cost-effectively sequence medium to large scale sequencing experiments such as gene expression, transcriptomics, single-cell sequencing including libraries prepared using the 10x Chromium Controller (available in the UoD’s Flow Cytometry & Cell Sorting facility), whole exome sequencing, and whole genome sequencing of even large genomes. For example, the NovaSeq 6000 is capable of sequencing up to 48 whole human genomes in one run using two flow cells. This impressive instrument reduces the cost-per-read of NGS experiments. For details on different sequencing options for the MiSeq, please consult the table below:

Service offered Maximum reads per flow cell Maximum gigabases per flow cell Read length paired end Read length single end
SP 100 cycles 800 million 80 Gb 2 x 50 bp 1 x 100 bp
SP 200 cycles 800 million 167 Gb 2 x 100 bp 1 x 200 bp
SP 300 cycles 800 million 250 Gb 2 x 150 bp 1 x 300 bp
SP 500 cycles 800 million 400 Gb 2 x 250 bp 1 x 500 bp
S1 100 cycles 1.6 billion 167 Gb 2 x 50 bp 1 x 100bp
S1 200 cycles 1.6 billion 333 Gb 2 x 100 bp 1 x 200 bp
S1 300 cycles 1.6 billion 500 Gb 2 x 150 bp 1 x 300 bp
S2 100 cycles 4.1 billion 417 Gb 2 x 50 bp 1 x 100 bp
S2 200 cycles 4.1 billion 833 Gb 2 x 100 bp 1 x 200 bp
S2 300 cycles 4.1 billion 1250 Gb 2 x 150 bp 1 x 300 bp
S4 35 cycles 10 billion 350 Gb 1 x 35 bp
S4 200 cycles 10 billion 2000 Gb 2 x 100 bp 1 x 200 bp
S4 300 cycles 10 billion 3000 Gb 2 x 150 bp 1 x 300 bp



MiSeq
The MiSeq is ideally suited for sequencing of targeted genotyping, 16s metagenomics, targeted expression profiling, miRNA, small RNA or whole genome sequencing of smaller genomes e.g. bacteria, fungi, viruses. The MiSeq is able to produce up to 300 base reads with a maximum of 25 million reads per run. For details on different sequencing options for the MiSeq, please consult the table below:

Service offered Maximum reads per flow cell Maximum gigabases per flow cell Read length paired end Read length single end
Nano 300 cycles 1 million 0.3 Gb 2 x 150 bp 1 x 300 bp
Nano 500 cycles 1 million 0.5 Gb 2 x 250 bp
Micro 300 cycles 4 million 1.2 Gb 2 x 150 bp 1 x 300 bp
50 cycles 15 million 0.85 Gb 1 x 50 bp
150 cycles 25 million 3.8 Gb 2 x 75 bp 1 x 150bp
300 cycles 15 million 5.1 Gb 2 x 150 bp 1 x 300 bp
600 cycles 25 million 15 Gb 2 x 300 bp