The assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-Seq) is a popular method for determining chromatin accessibility at the genome-wide level. The hyperactive Tn5 transposase inserts sequencing adapters into regions of open chromatin. By sequencing these regions, researchers can investigate areas of increased accessibility and correlate with gene expression.
Questions?
Contact Elyse Froehling: next-gen@umn.edu.
UMN Rates
| Service | Savings Tier | Speed Tier | Priority Tier |
|---|---|---|---|
| ATAC-Seq library creation. | $66.51 | $102.86 | $195.85 |
| Turnaround time. | 10 to 15 days | 6 to 10 days | 3 to 5 days |
| Transposase for ATAC-Seq. | $108.65 | N/A | N/A |
Notes
Tiers: Turnaround time (TAT) is in business days. Availability for the Priority Tier is limited; contact next-gen@umn.edu to see if this is a current option.
External Rates
| Service | Savings Tier | Speed Tier | Priority Tier |
|---|---|---|---|
| ATAC-Seq library creation. | $84.85 | $125.29 | $228.63 |
| Turnaround time. | 10 to 15 days | 6 to 10 days | 3 to 5 days |
| Transposase for ATAC-Seq. | $138.60 | N/A | N/A |
Notes
Tiers: Turnaround time (TAT) is in business days. Availability for the Priority Tier is limited; contact next-gen@umn.edu to see if this is a current option.
Submission
How to Order
1. Please contact next-gen@umn.edu for project specifications.
2. Once project details are finalized, complete the appropriate submission form for submitting samples or submitting client-made libraries and email to next-gen@umn.edu.
Illumina Sequencing Request Form (Libraries)
Illumina Sequencing Request Form (Samples)
Shipping Instructions
Samples should be frozen and shipped on dry ice in a 96-well plate. We recommend using plate tape to seal the wells. Place the plate inside of a plastic bag prior to placing on dry ice. Please give advance notice of submission date and time so staff can be prepared to receive samples. If shipping samples from outside the University of Minnesota, ship via express shipping carrier on dry ice to the address below.
Samples can be dropped off at one of our campus locations
1-210 Cancer & Cardiovascular Research Building (Minneapolis campus)
20 Snyder Hall (St. Paul campus)
Samples can be shipped to the following address:
Please send the tracking information to next-gen@umn.edu.
UMN Genomics Center
ATTN: Nasia Mead
3510 Hopkins Place N.
Building 4 Suite W402
Oakdale, MN 55128
612-625-7736
Deliverables
Data Release
There are four options for transferring data from the UMGC to clients: 1) delivery to the Minnesota Supercomputing Institute’s (MSI) high-performance file system, 2) download from a secure website, 3) download with Globus, or 4) shipment on an external hard drive. Please indicate your data delivery preference when placing an order for sequencing.
1. MSI storage
Internal clients have their data released to MSI's Shared User Resource Facility Storage (SURFS). Delivered data will be located in the "data_delivery" folder in your group's folder on MSI's primary filesystem (home/GROUP/data_delivery/umgc). MSI does not charge for SURFS storage costs, but files expire and are removed one year after they've been delivered. Files should be copied to other MSI storage locations such as Tier2, Tier3, or your group's "shared" folder before they expire.
2. Web download
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.
3. Globus
Internal and External clients can use Globus to download their data. This is the recommended method for external clients to download large datasets.
4. Hard drive
External clients may have data shipped on a hard drive purchased by the UMGC and invoiced to the client at a cost of $250 per hard drive.
Data Recovery
The UMGC archives most customer data for a year and some datasets are retained for 5 years or more. If you need a dataset re-delivered email a request to next-gen@umn.edu to initiate data recovery. The UMGC does not provide any guarantee that data can be successfully recovered from the archive.