SGT Ordering

Create an Account in DUGSIM 

1. Go to DUGSIM and click on "Sign up."

2. Enter name, email for username, and password.
*Enter your Duke NetID, if you have one. Otherwise, leave the text box empty.
    
3. Choose an existing institution or create a new one.
*Click the dropdown arrow to select your institution. If it is not listed, click the "Add institution" button.
    
4. Join an existing lab (designated account manager will receive your request) or create a new lab (you will become the account manager for this lab).*Click the dropdown arrow to select your lab. If it is not listed, click the "Add lab" button.

Get an Official Quote (Account Required) 

1. Sign into DUGSIM.

2. 
3. Click on "Estimate cost."

4. Select lab affiliation.*If you have multiple lab affiliations, click the dropdown arrow to select the appropriate lab.
    
5. Choose sequencing platform, library preparation type + quantity, and sequencing protocol + quantity.


   *The library and pool product dropdown menu shows how many samples are included per service. Choose your quantity according. If you plan to prepare your own pool(s), leave this section blank.

6. Click on "Estimate cost" button to see estimate.

7. Click on the "Request quote" button at the bottom of the page.


   *Update the “label” text box. Any orders ensuing from your quote will have the same label. If needed, add any questions or important information in the comments section.

8. Our staff will review and process your request within 24 hours.

Place an Order (Quote Required) 

1. You will receive an email from DUGSIM of your approved quote.

2. Sign into DUGSIM.

3. Go to the "Main" page and locate your quote.

4. Duke users: directly place an order from the approved quote.
   Non-Duke users: fill and approved the online authorization form then click on "Advance to Orderable."
5. Once an order is placed and we have validated the mode of payment (reception of your Purchase Order form or valid Fund Code), a project will be assigned a unique order number. We do not accept credit cards or wire transfers.

Prepare & Submit Samples

Prepare Your Sample(s) (Order Required)

*We will return samples that are not properly prepared and/or submitted

1. Sign in DUGSIM.

2. Go to the "Main" page and locate your order.
3. Click on the "Edit samples etc." button to fill in information about your samples. 
4. Prepare your samples according to the Sample Requirement page – we will return samples that are not properly prepared and/or submitted

Submit Your Sample(s) (Prepared Samples Required)

1. Print a copy of your unique order number (not quote) and place that with your samples
2. We have three ways to submit your samples
   1. Duke’s Campus:
      • *email microbiomesr@duke.edu to coordinate drop off
        MSRB3 - 3 Genome Ct., Durham
        Mondays - Tuesdays, 2 - 3 p.m
        **Any biological samples that need extraction services must be dropped off at Chesterfield and NOT MSRB3
         
   2. Direct Drop Off
      Chesterfield Bldg - 701 W. Main St, Suite 320
      Mondays - Thursdays, 10 a.m - 4 p.m.
      Fridays 10 a.m. - 12 p.m.
       
   3. Ship
      Attn: Sequencing Order [#xxxx]  
      GCB Sequencing and Genomic Technologies Shared Resource
      Chesterfield Bldg.
      Duke University
      701 W. Main Street
      Suite 320,
      Durham, NC 27701
      USA

Data Delivery & Processing

1. We deliver your data in the form of demultiplexed FASTSQ files via an sftp server. We will send you login and password information to access the data via email. To share data with collaborators, you can simply forward the email containing the login and password information. Data is retained for thirty days. Please reach out to us about delivering demultiplexed 10x data.
   • Most sequencing runs performed today are paired-end. This means you have a file from both ends of the insert - read 1 (R1) and read (R2). If your order was on more than one lane, each lane will produce a separate sequencing file also (L001-L004)
2. Beyond delivery of FASTQ data, we provide basic data processing for $97/hour. Contact us for more information:
   • Mapping and Basic QC
   • RNA-seq data processing
   • Variant calling
   • Peak calling
3. For all publications that include data generated in the Sequencing and Genomic Technologies Core Facility, we kindly request that you acknowledge this support:
   
   We thank the Duke University School of Medicine for the use of the Sequencing and Genomic Technologies Core Facility, which provided ______________ service.