The NovaSeq 6000 is the latest production-scale sequencer from Illumina generating unprecedented output in less than two days. The main technical advancements include:
The patterned flow cells have a defined, organized array of etched wells that each contain a DNA probe for adhering complementary sequences added to DNA libraries. This patterned flow cell replaces the randomly scattered clusters found in imaging intensive, non-patterned flow cells responsible for slower processing time.
The instrument utilizes Illumina’s 2-channel sequencing by synthesis chemistry, which requires only two images per cycle, instead of the original 4-channel chemistry used by its predecessor, the HiSeq 2500. This simplified nucleotide detection reduces imaging and accelerates data processing times while preserving the same accuracy and quality found in the 4-channel chemistry.
Additional technical details on the NovaSeq instrument can be found on the Illumina website.
Currently, there are three flow cell types (S1, S2, and S4) available with a range of outputs to meet any project’s scale, and a fourth flow cell, the S prime, anticipated by Illumina later this year for smaller run sizes. Similar to the HiSeq 2500 HO, the NovaSeq XP protocol allows for loading of individual flow cell lanes with different library types, thereby expanding flow cell flexibility.
|Reagent Kits||Cycles||Read Options||# Lanes||Reads/
|GB||RNA-Seq samples @ 20 M||Human Exome @ 40X||Human Genome @ 30X|
|S1 Flow Cell||100||1 X 100 SR
2 X 50 PE
|S1 Flow Cell||300||2 X 150 PE||2||750||225||37||45||2.5|
|S2 Flow Cell||100||1 X 100 SR
2 X 50 PE
|S2 Flow Cell||300||2 X 150 PE||2||1600||480||80||100||5.33|
|S4 Flow Cell||300||2 X 150 PE||4||2250||675||112||140||7.5|
The NovaSeq produces record output per flow cell combined with reduced on-instrument sequencing durations, thus dramatically improving throughput and speed over previous generations of sequencers. The immense scalability and range of applications of the NovaSeq allows for efficient sequencing of whole human, plant, and animal genomes, whole exomes, and large whole transcriptome projects at lowest per sample costs compared to other Illumina instruments.
Careful consideration of sample numbers and flow cell output is crucial for effective use of the platform. The high yields of the NovaSeq flow cells may present difficulties in efficiently filling flow cells for researchers and our intention is to introduce a lane sharing option or fractional lane purchase later this year.
Please contact Aaron Becker or Elyse Cooper at email@example.com before submitting a project for the NovaSeq platform.
Researchers can download the appropriate submission form for submitting samples or submitting client-made libraries. Once the form has been completed, please submit the submission by emailing firstname.lastname@example.org.
1-202 Nils Hasselmo Hall (Minneapolis campus)
1-210 Cancer & Cardiovascular Research Building (Minneapolis campus)
20 Snyder Hall (St. Paul campus)
Please send the tracking information to email@example.com.
University of Minnesota Genomics Center
1475 Gortner Ave.
28 Snyder Hall
St. Paul, MN 55108
There are three options for transferring data from the UMGC to clients: delivery to the Minnesota Supercomputing Institute’s (MSI) high-performance file system, download from a secure website, or shipment on an external hard drive. Please indicate your data delivery preference when placing a order for sequencing.
Internal clients and external clients that opt-in to MSI storage have their data released to the client’s MSI group directory on the MSI high-performance filesystem (/home/GROUP/data_release/umgc), from where it can be analyzed using MSI’s high-performance computers or Galaxy system. The data is stored for five years in uncompressed format with read-only permissions to avoid accidental modification, and secure off-site tape backups of the data are maintained for disaster recovery. MSI will charge the client a storage fee for this service.
Internal clients that opt-out of MSI storage and external clients can download their data from a secure website using either a web browser or a command-line download tool, complete instructions are provided in an email from the UMGC. The client’s data is available for download for 30 days, after which the data will be removed from the data download website and the client takes responsibility for storing the data.
External clients may have data shipped on a hard drive purchased by the UMGC and invoiced to the client.
MSI guarantees storage of client data for five years, after which the data can be transferred to tape for long-term storage, contact MSI (firstname.lastname@example.org) for more information.
Data is typically recoverable for up to 5 years. If the external researcher should ever need the FASTQ files re-posted to the data download website or shipped on a hard drive within 5 years from data release, email email@example.com to initiate data recovery. The client will be charged for the cost of recovering the data from tape archive. The UMGC does not provide any guarantee that data can be successfully recovered from tape archive.
Yes, please consult with UMGC staff before submitting client-made libraries by emailing firstname.lastname@example.org.
We recommend that pooling be done at UMGC as PicoGreen concentrations are used for balancing libraries. However, clients may choose to pool themselves.
Client-made libraries will have the following services performed on them before proceeding with sequencing.
University of Minnesota Genomics Center 1475 Gortner Ave. 28 Snyder Hall St. Paul, MN 55108 612-625-7736