Parse Biosciences Single Cell
As part of our mission to diversify our NGS offerings, the UMGC has expanded our single-cell solutions to include the Evercode split pool combinatorial barcoding technology by Parse Biosciences. By converting each cell or nucleus into an individual reaction compartment, Parse Evercode enables researchers to profile cells at various levels of scale and then tailor to suit their experiment needs.
- Scalability – up to 96 unique biological samples and 1,000,000 cells or nuclei in a single experiment with low multiplet rates.
- Workflow flexibility– by separating the sample extraction from downstream library preparation, researchers can run fixed cells or nuclei collected on different dates or at different locations together in a single experiment.
Researchers can capture transcriptomic information immediately after sample collection with a rapid fixation protocol.
Library Preparation Options
The UMGC offers library preparation services beyond the Parse Evercode whole transcriptomics to include the TCR and Gene Capture immune profiling and enrichment products.
Alternatively, since Parse Evercode is an instrument-free workflow, researchers can barcode and prepare libraries from within their labs and submit libraries to the UMGC for QC and NGS sequencing.
Start a Project
Whether a researcher is new to single-cell sequencing or one of our experienced users, we can help determine which single-cell technology will best meet your experimental goals. The UMGC requests that researchers contact us at single-cell@umn.edu for consultation on all incoming single-cell projects.
Standard Rates
| Service | Scale | Unit | UMN | External |
|---|---|---|---|---|
| Whole Transcriptome. | ||||
| Evercode WT Mini. 10K Cells. | 1-any | library | inquire | inquire |
| Evercode WT. 100K Cells. | 1-any | library | inquire | inquire |
| Evercode WT Mega. 1M Cells. | 1-any | library | inquire | inquire |
| Additional kits. | ||||
| Evercode TCR. | 1-any | library | inquire | inquire |
| Gene Capture. | 1-any | library | inquire | inquire |
| Consultation. | ||||
| Project consultation. Discuss experimental goals, design, projected costs, and timeline. | 1-any | hour | inquire | inquire |
Submission
A planning meeting is needed to start a single-cell project to review your experimental goals and provide guidance on experimental design, as well as go over project logistics like turnaround estimates, scheduling, suspension buffer, and cell concentration requirements (varies based on assay).
Contact: single-cell@umn.edu
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.