Skip to content

Contribute to the database

IDBac Database Depositions

This flow chart is a guide on how to deposit genetically verified strains in the IDBac protein MS database.

*Click on the flow chart boxes for links to the required tools/pages.

*IDBac workflows require a mzML file format. For guidance on how to convert raw data or mzXML to mzML, see the 'Start Here' tabs to the left.

*All database depositions must have either an accompanying accession number or 16S taxonomy assignment and sequence.

flowchart TD A[Contribute to the IDBac protein MS database] --> B[Do you have a single mzML file per strain?] B -->|Yes| C[Download and fill out a deposition metadata sheet] B -->|No| D[Visit the 'Start Here' documentation tabs] C --> E[Upload your mzML and metadata files to the GNPS2 File Browser] E --> F[Open the IDBac deposition workflow] F --> G[Choose a task description and select your metadata and spectra mzML files] G --> H[Would you like to QC your spectra before deposition?] H --> |Yes| I[Select 'Yes' from the 'Dryrun Mode' dropdown and submit workflow] H --> |No| J[Select 'No' from the 'Dryrun Mode' dropdown and submit workflow] J --> K[View your deposition on the IDBac database web page] I --> L[Reference the 'QC your data' tab below] click C href "https://docs.google.com/spreadsheets/d/1yKsZ2FEw8-cWufvY8l31Ju8NTKujmEtb/edit?usp=sharing&ouid=102573514213912402103&rtpof=true&sd=true" click E href "https://gnps2.org/homepage" click F href "https://gnps2.org/workflowinput?workflowname=idbacdeposition_workflow" click K href "https://idbac.org/database" %% Styling style A fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:24px style B fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style C fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style D fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style E fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style F fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style G fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style H fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style I fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style J fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style K fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px style L fill:#FFFFFF,stroke:#000000,stroke-width:2px,font-size:18px %% Link Styling linkStyle 0 stroke:#ffcc33,stroke-width:3px linkStyle 1 stroke:#ffcc33,stroke-width:3px linkStyle 2 stroke:#ffcc33,stroke-width:3px linkStyle 3 stroke:#ffcc33,stroke-width:3px linkStyle 4 stroke:#ffcc33,stroke-width:3px linkStyle 5 stroke:#ffcc33,stroke-width:3px linkStyle 6 stroke:#ffcc33,stroke-width:3px linkStyle 7 stroke:#ffcc33,stroke-width:3px linkStyle 8 stroke:#ffcc33,stroke-width:3px linkStyle 9 stroke:#ffcc33,stroke-width:3px linkStyle 10 stroke:#ffcc33,stroke-width:3px

More Resources

QC your Data

Use the following images to convert raw Bruker data to mzML:

Metadata Instructions

This page can also be found in the Metadata Excel doc.

    DepositionMetadataInstructions