For researchers who simply need to turn constructed sequencing libraries into raw sequencing data, we offer a service for Ready-To-Sequence libraries. In short, constructed libraries are sent to NGX Bio and FASTQ.gz results are produced using any desired Illumina run configuration. The five most common run configurations are listed below and custom options are available to accommodate any project.
Following sample submission, all Ready-To-Sequence libraries are put through quality control (QC) testing to measure both the quantity and quality/integrity of the material. Even if libraries are literally “Ready-To-Load” it is standard/best practice at all DNA sequencing facilities we work with to run this extra QC testing on the submitted material before loading onto a sequencer. This is necessary because, by the nature of Illumina’s sequencing-by-synthesis (SBS) chemistry used in the “clustering” of each sequencing flow cell, an imperfect library can cause a run to effectively fail (in the sense that no useful data is produced) even if everything is done perfectly by the sequencing facility and the sequencer itself.
If you have done the QC yourself to a high degree of confidence, it’s best to think of the QC step performed at the sequencing facility as a risk mitigation step. Assuming your library is perfect and the data you get back is suboptimal, that QC step at the sequencing facility will be extremely helpful for us while troubleshooting. Whenever we receive suboptimal results, we work with the sequencing facility on behalf of our customers to determine the extent to which the suboptimal data is the result of a mechanical problem on the sequencer versus a problem with the submitted library or libraries. Having QC data performed internally at the sequencing facility and signed off on prior to sequencing is crucial to avoid unfair scapegoating of the submitted library while troubleshooting the sequencing results.
Data is delivered as FASTQ.gz files through Globus Connect or a direct transfer into your Amazon Web Services (AWS) S3 account, if available.