- Who is my project manager?
- What are the product catalog sequencing types that the JGI offers?
- How do I submit a proposal for sequencing or DNA synthesis?
- Who signs the User Agreement?
- How do I obtain a JGI login?
- I have new contact information. How can I update my JGI account?
- What are the guidelines for sample submission?
- Does the JGI recommended any specific protocols for sample preparation?
- How do I submit samples to the DSMZ?
- I am an investigator located outside of the United States. How should I prepare my materials for shipment to the JGI?
- Can I request a culture/slant/DNA of an organism that has been sequenced at the JGI?
- How do I check the current status of a project?
- Where can I view the analysis and annotation for a project?
- What is the JGI data release policy?
- How do I register for an IMG account?
- What authors should I include in my publications?
- How do I acknowledge the JGI for the sequencing or DNA synthesis work done for my project?
- What JGI-sponsored meetings or workshops are available to me?
1. Who is my project manager?
- Eukaryotic projects: Kerrie Barry, Vivian Ng
- Prokaryotic projects: Nicole Shapiro, Tijana Glavina del Rio, Miranda Harmon-Smith
- DNA Synthesis: Miranda Harmon-Smith
- Special Projects: Christa Pennacchio
2. What are the product catalog sequencing types that the JGI offers?
The JGI offers multiple product offerings for each program.
3. How do I submit a proposal for sequencing or DNA synthesis?
The majority of JGI projects come from the user community. The Community Science Program (CSP) is the largest; find out more about this program and others that are available, and submit your proposal online using the Work Initiation Process (WIP) interface
4. Who signs the User Agreement?
The “User” signing the JGI User Agreement will be an authorized representative from your institution (usually a legal counsel representative) . The User Agreement and corresponding Appendix must be signed and returned before work on your proposal may begin. You will be notified by your project manager in the initial correspondence with you if the User Agreement and Appendix are active and if no additional signatures are required.
5. How do I obtain a JGI login?
You can request a JGI Single Sign On account at https://signon2.jgi.doe.gov. This account can be used to submit proposals, Sample and Project metadata (coming soon) and to access JGI Tools and systems.
6. I have new contact information. How can I update my JGI account?
- Go to the “edit contacts” page.
- Use the form to update all information except email address.
- To update your email address, click the “Request email change” link. This will generate an email that will go to an administrator to complete the process.
7. What are the guidelines for sample submission?
Guidelines detailing the quantity and quality requirements for samples submitted to the JGI can be found here. Please inform your project manager of an accurate date of sample preparation and anticipated shipment. Based on that date, the project manager may then schedule and allocate resources for DNA sequencing.
8. Does the JGI recommended any specific protocols for sample preparation?
No. However, the JGI does maintain a list of protocols used successfully by investigators in the past. These protocols are not endorsed by and have not been validated by the JGI, but are provided as general guidance.
9. How do I submit samples to the DSMZ?
The Principal Investigator (PI) will submit the proposed strain of interest to DSMZ following the instructions under Deposit in the Public Collection. The JGI microbial genome program works in conjunction with the DSMZ for sample preparation. Please contact Nicole Shapiro for further information.
10. I am an investigator located outside of the United States. How should I prepare my materials for shipment to the JGI?
Note: the JGI does not recommend shipping a dry/lyophilized pellet. It is usually very difficult to resuspend the pellet once it is received. If you have concerns about shipping your total RNA on dry ice, RNAstable may be an appropriate alternative. Please discuss with your Project Manager.
11. Can I request a culture/slant/DNA of an organism that has been sequenced at the JGI?
The JGI does not maintain DNA, cultures or stocks of any organisms. These materials should be obtained by contacting the collaborator listed on the “info” page for that organism on the Genome Portal.
12. How do I check the current status of a project?
You can view the status of all public projects on the JGI project list. If you are a BRC collaborator, you can login to access a password-protected version of this project list that includes projects from your BRC. Please check with your project manager to obtain access.
13. Where can I view the analysis and annotation for a project? How can I add to an existing annotation?
Analysis and annotation of publicly available projects can be accessed via the Genome Portal, at the following sites:
The following tools are available for functional annotation/curation of your genomes:
14. What is the JGI data release policy?
In general, data generated by the JGI are immediately released to the public via JGI portals and NCBI. Read More about our Policies.
15. How do I register for an IMG account?
In order to view the annotation status of your microbial and metagenome projects and to receive the annotated data for your project’s assembly, you must have an IMG account.
You can request a JGI Single Sign On account at https://signon2.jgi.doe.gov– follow the “Register Now!” link in the bottom right corner.
Please request an account to access IMG-ER or IMG/M-ER. http://img-stage.jgi-psf.org/cgi-bin/submit/request.cgi
16. What authors should I include in my publications?
Individuals who materially contribute to publishable work must be included as authors. Your project manager can provide you with contact information and institutional affiliations for individuals associated with your proposal. The JGI Publication Policy outlines additional information related to publication.
17. How do I acknowledge the JGI for the sequencing or synthesis work done for my project?
The JGI asks that you please use the JGI Auspice Statement to acknowledge the sequencing done by the JGI.