How to Submit to dbSNP:
III. The dbSNP Pre-Submission Process
Version 4.1; December 11, 2015
Before you create your submission metafiles and format your submission with dbSNP, you will need to complete the dbSNP Pre-Submission Process, which will provide you with necessary IDs and accession numbers that you will need to provide to dbSNP when you submit. This page describes the pre-submission process, provides an overbview of the dbSNP HUP policy, and will direct you to dbSNP's submission help resources.
The dbSNP Pre-Submission Process
The dbSNP 5 step pre-submission process is a series of required actions you will need to perform before you can submit your data to dbSNP. Completeing these tasks will shorten the time you need to spend on your submission and will allow dbSNP to expedite your submission processing.
1. Get a MyNCBI ID
We strongly encourage you to obtain an MyNCBI ID. It will be used to track your study at NCBI, and is very useful for integrating your study data with the numerous resources at NCBI. If you do not already have a MyNCBI login, create one at the NCBI sign in page.
2. Deposit your Raw Data in a Public Database
If you have not already done so, deposit all your sequence and/or array data in a public database: e.g., GenBank, GEO, dbGaP, SRA or Trace.
3. Get a BioProject Accession
We strongly encourage you to register your project in BioProject. Once you have your BioProject Accession number, you can reference it in your dbSNP submission so that users can easily link from the dbSNP record of your submitted variant to the detailed information you provide to BioProject, allowing investigators studying your variant to see how the experiment that generated the variant fits in to your overall research goals. See BioProject, BioSample and dbSNP for more information on the types of data BioProject collects, organizes and makes available to dbSNP users.
NIH-funded projects must be registered in BioProject with the assigned BioProject accession associated with the grant number for compliance with the NIH Genomic Data Sharing (GDS) Policy. If your data is not already associated with an NCBI BioProject accession, request one via the NCBI Submission Portal.You can reuse BioProject accession registered for the same NIH-funded project for submission to other NCBI databases including GenBank, SRA, and dbSNP.
4. Get a BioSample Accession
We strongly encourage you to register your samples with BioSample. Once you have your BioSample Accession number, reference it in your dbSNP submission so that users can easily link from the dbSNP record of your submitted variant to the detailed information you provided to BioSample about the characteristics of the sample used to generate the variant. If you are working with a pure source of any of the commonly used commercial cell lines that are re-used over and over again by the research community, you may be able to bypass Biosample submission and use a "Reference Biosample" accession in your dbSNP submission instead. See BioProject, BioSample and dbSNP for more information on "Reference BioSamples" and the types of data BioProject collects, organizes and makes available to dbSNP users.
5. Request a Submission Handle
dbSNP asks each laboratory submitting data to dbSNP to choose and request a "handle" prior to their first submission so that dbSNP can trace data origin over time. The dbSNP Online Handle Request Form allows a new submitter to choose a handle (generally an acronym or shortened name of the submitting entity), and submit contact information for that handle.
Requesting a dbSNP Submission Handle Step-by-Step
*Search https://www.ncbi.nlm.nih.gov/SNP/snp_tableList.cgi?type=submitter to see if your laboratory or group already has a submitter handle.
*If you do not already have a handle, you can request one using the dbSNP Handle Request Form. Use the examples in the Handle Contact Information section to help you fill out the form.
*Alternatively, should you decide to start your submission using the NCBI Variation Submission Portal,we will create a handle for you from the contact information you provide with your myNCBI registration.
Handle Contact Information
The contact information requested for a handle should be that of a person of authority who will be associated with the laboratory regardless of who actually handles and submits the data - we suggest you use the contact information of Principle Investigator. The information requested in dbSNP's Handle Request form is as follows:
HANDLE:An abbreviated name or acronym to identify the submitting laboratory
NAME: Name of the lab chief or principal investigator
FAX:Include area code (and country code if outside of the USA)
TEL:Include area code (and country code if outside of the USA)
EMAIL: Address for lab chief or principal investigator
LAB: Name of the laboratory, or if the submitting laboratory is a private institution, use the name of the Principle Investigator
INST: Name of the institution to which the laboratory belongs
ADDR: Complete mailing address of the Submitting laboratory
Changes to Handle Contact Information
If the contact information for the Principle Investigator associated with a handle changes, notify NCBI at [email protected], and we will update the handle so that the Principle Investigator stays associated with his/her data in the case of a move to a new institution.
Contact dbSNP
If you do not find the answer to your submission questions in the How to Submit to dbSNP document series, contact dbSNP submissions at [email protected], and we will do our best to answer your submission question or help you solve a difficult submission problem.
- Send submissions and submission inquiries to: [email protected]
- Send submission updates to: [email protected]
- Send general inquiries, etc. to: [email protected]
Titles in the How to Submit to dbSNP Series: