CENTRA: knowledge-based gene contextuality graphs reveal functional master regulators by centrality and fractality
Frank Hause, Alice Wedler, René Keil, Laura Schian, Markus Glaß, Wiebke F Grimm, Oleksandr Sorokin, Wolfgang Hoehenwarter, Andrea Sinz, Stefan Hüttelmaier · 2025
Read CENTRA: knowledge-based gene contextuality graphs reveal functional master regulators by centrality and fractality by Frank Hause, Alice Wedler, René Keil, Laura Schian, Markus Glaß, Wiebke F Grimm, Oleksandr Sorokin, Wolfgang Hoehenwarter, Andrea Sinz, Stefan Hüttelmaier (2025) 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-12714692.txt.
Description
Frank Hause and co-authors introduce CENTRA in a 2025 paper, a framework that maps genes by the contexts they act in. Standard enrichment tools lean on fixed gene sets and lack single-gene detail, which limits flexible study. CENTRA instead builds networks of genes that appear together around set topics.
Topic modeling over more than twelve thousand abstracts linked to a curated gene set database yielded twenty-seven biological topics. Each topic became its own network, covering healthy states, drug effects, and disease programs. Measures of centrality, local fractality, and response to disturbance profiled every gene. Known master regulators stood out, fresh candidates surfaced, and quiet genes could be ranked by how robust their profiles were. A public browser lets anyone explore the networks.
Catalog record
| CREATOR | Frank Hause, Alice Wedler, René Keil, Laura Schian, Markus Glaß, Wiebke F Grimm, Oleksandr Sorokin, Wolfgang Hoehenwarter, Andrea Sinz, Stefan Hüttelmaier |
|---|---|
| YEAR | 2025 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 57 KB |
| VERSION | 1.0 |
| LICENSE | CC BY 4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |