Petagraph: A large-scale unifying knowledge graph framework for integrating biomolecular and biomedical data
Benjamin J. Stear, Taha Mohseni Ahooyi, J. Alan Simmons, Charles Kollar, Lance Hartman, Katherine Beigel, Aditya Lahiri, Shubha Vasisht, Tiffany J. Callahan, Christopher M. Nemarich, Jonathan C. Silverstein, Deanne M. Taylor · 2024
Read Petagraph: A large-scale unifying knowledge graph framework for integrating biomolecular and biomedical data by Benjamin J. Stear, Taha Mohseni Ahooyi, J. Alan Simmons, Charles Kollar, Lance Hartman, Katherine Beigel, Aditya Lahiri, Shubha Vasisht, Tiffany J. Callahan, Christopher M. Nemarich, Jonathan C. Silverstein, Deanne M. Taylor (2024) in the Tower of Babel, a free online library of public-domain works preserved in clean, searchable text. No sign-up. The full text is served as a plain-text file at a predictable URL, where text is present: https://antarctic-labs.com/tower-of-babel/pmc-11655564.txt.
Description
Twelve authors, led by Benjamin Stear, present Petagraph in this 2024 paper, a giant map linking biomedical data of many kinds. The past decade flooded biology with data: genes, proteins, diseases, and drugs, each stored in its own silo. Joining those silos by hand is slow and error-prone.
Petagraph is a knowledge graph holding over 32 million nodes and 118 million links. It draws on more than 180 standard vocabularies to give every item one shared identity. Millions of measured data points from genome studies are embedded in that frame. Users can then ask questions that cross data types in one query, like tracing a gene to a disease to a drug. The authors show such queries can surface findings no single dataset holds. The graph is offered as shared ground for the field.
Catalog record
| CREATOR | Benjamin J. Stear, Taha Mohseni Ahooyi, J. Alan Simmons, Charles Kollar, Lance Hartman, Katherine Beigel, Aditya Lahiri, Shubha Vasisht, Tiffany J. Callahan, Christopher M. Nemarich, Jonathan C. Silverstein, Deanne M. Taylor |
|---|---|
| YEAR | 2024 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 116 KB |
| VERSION | 1.0 |
| LICENSE | CC BY 4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |