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Abstract
By processing and abstracting diverse omics datasets into associations between genes and their attributes, the Harmonizome database enables researchers to explore and integrate knowledge about human genes from many central omics resources. Here, we introduce Harmonizome 3.0, a significant upgrade to the original Harmonizome database. The upgrade adds 26 datasets that contribute nearly 12 million associations between genes and various attribute types such as cells and tissues, diseases, and pathways. The upgrade has a dataset crossing feature to identify gene modules that are shared across datasets. To further explain significantly high gene set overlap between dataset pairs, a large language model (LLM) composes a paragraph that speculates about the reasons behind the high overlap. The upgrade also adds more data formats and visualization options. Datasets are downloadable as knowledge graph (KG) assertions and visualized with Uniform Manifold Approximation and Projection (UMAP) plots. The KG assertions can be explored via a user interface that visualizes gene–attribute associations as ball-and-stick diagrams. Overall, Harmonizome 3.0 is a rich resource of processed omics datasets that are provided in several AI-ready formats. Harmonizome 3.0 is available at https://maayanlab.cloud/Harmonizome/.
Academic Publication Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources
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Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources
Abstract By processing and abstracting diverse omics datasets into associations between genes and their attributes, the Harmonizome database enables researchers to explore and integr...
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What is the core focus of the research titled 'Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources'?
This literature focuses on: Abstract By processing and abstracting diverse omics datasets into associations between genes and their attributes, the Harmonizome database enables researchers to explore and integrate knowledge about human genes from many central ...
Are there open-source GitHub repositories related to Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources?
Yes, open-source projects like BigBodyCobain/Shadowbroker (Open-source intelligence for the global theater. Track everything from the corporate/private jets of the wealthy, and spy satellites, to seismic ev...) are actively building upon these concepts.
Which startups are commercializing the technology behind Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources?
Products like WUPHF by Nex.ai are bringing this to market. Their focus is: AI employees who build their own knowledge base.
What other academic literature is closely related to 'Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources'?
Yes, highly correlated activity was mapped. An entry titled 'Harmonizome 3.0: integrated knowledge about genes and proteins from diverse multi-omics resources' discusses this: Abstract By processing and abstracting diverse omics datasets into associations between genes and their attributes, the Harmonizome ...
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Commercial Realization
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GitHubBigBodyCobain/Shadowbroker
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GitHubLum1104/Understand-Anything
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Product HuntWUPHF by Nex.ai
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Product HuntLiminary