Next-Generation-Sequencing (NGS) is a high-throughput method for massive, parallel sequencing of millions of nucleotide fragments.
A NGS experiments needs a carefully evaluated study design, good quality source material (DNA or RNA), a so-called library preparation,
the sequencing run to generate big datasets and bioinformatic / statistician expertise to extract meaningful biological results from these data.
In our institute, we offer to do the library preparation process as well as the NGS sequencing on the basis of a scientific collaboration. Currently, the fleet of NGS sequencing devices in our institute comprises two Illumina NovaSeq 6000, one NextSeq 500, three MiSeq systems and a PacBio Sequel IIe.
The Illumina MiSeq is a small benchtop sequencer with a maximum output of 50 M paired-end reads and 15 Gigabases. Due to its low throughput
and rapid turnaround time, the MiSeq is recommended for targeted re-sequencing (small gene panels, e.g. BRCA), amplicon sequencing (e.g. 16S)
and sequencing of small genomes (e.g. bacteria).
See output specifications of the MiSeq here.
The Illumina NextSeq is a small high-throughput benchtop sequencer with a maximum output of 800 M paired-end reads and 120 Gigabases of data.
With the choice of a variety of different Flowcells, the NextSeq is a highly flexible device and can be used for Exome sequencing, transcriptome
sequencing and Panel-Sequencing. Because of its rapid turnaround time, we recommend this device for urgent samples.
See output specifications of the NextSeq here.
The NovaSeq 6000 is our newest addition to our sequencer lineup. With a large variety of different Flowcells (S1, S2, S4) offering different read-length
and data outputs, the NovaSeq is highly flexible device. With up to 10 billion reads and 3000 gigabases output the NovaSeq is the sequencer with the highest
data output available. The NovaSeq is recommended for high-throughput experiments, e.g. exomes, genomes and transcriptomes. 4 lanes can be loaded individually.
Note that for the NovaSeq, no single-end sequencing option is available.
See output specifications of the NovaSeq 6000 here.
The PacBio Sequel II is a long-read sequencer of the third generation, producing up to 4.000.000 reads with read-lengths up to 30 kilobases.
With the circular-consensus-sequencing technology, read accuracies of 99.99 % can be achieved. The Sequel II is recommended for de novo genome
projects and structural variant detection as well as full length transcript RNAseq (IsoSeq). In addition, multiplexed long amplicon
sequencing (e.g. full lengths 16S) is possible.
See specifications of the Sequel here and information on the special requirements of third generation sequencers here.