ImMSigDb - Immune Models and Signatures Database

ImMSigDb is a NoSQL document-oriented database created using Google Cloud Firestore. For more information, see the Intro to Firestore or the wiki of this GitHub repository.

Objective: ImMSigDb aims to provide immunology context-rich molecular feature sets from diverse resources. These sets can be used for enrichment analysis and multivariate data association analysis, facilitating the immunology research community.

Note: The database is designed to be flexible and open to various feature types beyond genes, such as metabolomics, microbiome, for future modeling in the context of immunology.

Under Development

ImMSigDbR: An R package for feature set enrichment analysis is under active development, with an estimated release date of September 2024. The goal is to offer a single resource for easy and insightful visualizations and analyses using these (and/or others) features sets with minimal effort.

Age related PBMC Immune Signatures Under dev

Data organization

Based on the heterogeneous collections and sources from which the data is fetched, two primary methods are used to organize the data in Firestore:

1. Pathways/Networks:

   Components: Features, interactions (Since, initially these include interaction data, so we will model the interactions comprehensively as well e.g. pathways models)

2. Features Sets:

   Components: Features (Derived from experiments or marker-type data resources that do not contain interaction information)

   Organization: Organization of components include a standardized data structure from both types of data sources which shall use a minimum annotation and would be updated using nextflow pipeline biannually.

Current Data in ImMSigDb

• The full Firestore database can be downloaded in JSON format from ImMSigDb_v0.0.0.
• For datasets served, see full list at Datasets served

Data Updates

The database follows a biannual update model. The last update was made in June 3rd 2024 and json dumps can be downloaded from here untill the dashboard is made avaialible in Sep 2024.

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Table of Contents

• Home
• Adding data to ImMSigDb
• Current release, ImMSigDb_v0.0.0
• [Applications: Example] (This is a work in progress)

Suggestions and contributions are welcome!!