The Genomics Core supports massively parallel high-throughput sequencing using next-generation sequencers. These sequencers can generate billions of bases of data per run to support a wide variety of applications. Researchers can choose either single or paired-end reads. Multiple samples can be indexed (barcoded) and combined in order to optimize the system's output.
The Genomics Core of the NARF operates HiSeq 4000, NextSeq 500, and MiSeq platforms from Illumina, a Sequel System from Pacific BioSciences, Ion Torrent and Proton platforms from Thermo Fisher Life Technology, and a 454 FLX+ system from Roche. Oxford NanoPore MinION technology is also available. A BioNano IRYS automated optical mapping platform for detection of large chromosomal rearrangements is also available in the Core. (Go to “Platforms” for more details)
A next-generation sequencing experiment can be broken down into 4 steps:
- Experimental design (run type, desired output, read type)
- Library construction
- Sequencing runs
- Data analyses
Sequencing costs vary depending on the application, size of genome and required depth and coverage. The table below summarizes the recommendations for standard experiments.
Please speak to us before planning a large experiment. We can guide you to make most efficient use of your budget.
|Category||Application||Organism||Read Type1||Coverage or Reads (millions)2|
|Genome||De novo sequencing||Bacterial||2x300||50x|
|Transcriptome||Expression profiling||Human||1x75||10-25 M|
|Transcriptome||Alternative splicing||Human||1x75||50-100 M|
|Transcriptome||De novo assembly||Human||1x75||100 M|
|Transcriptome||Expression profiling||Bacterial||1x75||10 M|
|Small RNA||Expression profiling||Human||1x75||1-2 M|
|Small RNA||Discovery||Human||1x75||5-8 M|
1 Optimal sequence read length depends on the strategy and the objective. Please discuss this with us before deciding.
2 Generally, more coverage is better, but sometimes it is wasted sequencing power and money. Coverage depends on the anticipated outcome and purpose, and of course budget. Again, please see us for optimal use of your research dollars.