The HiSeq 2500 is our legacy workhorse instrument that provides high-throughput sequencing using single read or paired end v4 chemistry and has the ability to simultaneously process one or two flow cells. It features rapid and high output run modes, but due to the introduction of the NextSeq and advancements in 2-color chemistry, we no longer offer the rapid mode as a sequencing option. Clients previously selecting rapid runs for quick sequencing turnaround are advised to use the NextSeq instrument for fast processing. In the future, our HiSeq 2500 high output instrument will be removed from regular service and clients are encouraged to explore the NovaSeq as their new flagship production-scale instrument.
The UMGC guarantees ≥ 220 million reads in the forward direction for single-read runs, and for paired end runs, we guarantee ≥ 220 million reads in both forward and reverse directions resulting in ≥ 440 million single reads total. These output metrics are guaranteed for standard RNA or DNA, but libraries that are custom, amplicon, or low diversity are not subject to this read guarantee.
For clients with in progress research projects that want to continue with the classical 4-color chemistry, the HiSeq 2500 in high output mode remains a cost-effective choice for high-throughput sequencing.
Due to the use of 8-lane flow cells in high output mode, it may take longer to fill a flow cell with enough libraries for a run to proceed. In addition, the flow cell run time on the HiSeq is six days for a 2 X 125 PE run versus 30 hours for a 2 X 150 PE run on the NextSeq. Given this, the project turnaround on the HiSeq 2500 will be longer than if a project is sequenced on the NextSeq instrument.
Please contact Aaron Becker or Elyse Cooper at firstname.lastname@example.org for further details on using the HiSeq 2500 for sequencing or if you are interested in transitioning to the NovaSeq.
|HiSeq 2500 High Output Mode – Single-read|
|50-bp Single-read (1x50 SR).1||1-any||lane||$1,025.40||$1,455.52|
|HiSeq 2500 High Output Mode – Paired-end|
|50-bp Paired-end (2x50 PE).2||1-any||lane||$1,642.95||$2,332.12|
|125-bp Paired-end (2x125 PE).3||1-any||lane||$2,368.76||$3,362.39|
|1) 50-bp SR runs tend to be slow to fill and users can experience extended wait times. Clients are encouraged to migrate SR projects to the NextSeq platform.
2) Custom read lengths are available if a user fills the entire flow cell. Please contact NGS staff for details.
Researchers can download the appropriate submission form for submitting samples or submitting client-made libraries. Once the form has been filled, please complete the submission by emailing email@example.com.
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 firstname.lastname@example.org.
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 (email@example.com) 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 firstname.lastname@example.org 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 email@example.com. 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