A Hierarchical Multimodal Knowledge Graph for Neural Cell-Type-Specific Regulation Integrating Single-Cell Transcriptomics and Literature Evidence
Chuangyu Chen, Xiaomin Ni, Yang Min, Zhen Wang, Zhilan Xu, Yang Zhang, Hao Yu · 2026
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Description
Chen and colleagues build a knowledge graph mapping how genes are regulated in specific brain cell types, in 2026 biology data research. Such evidence lies scattered across papers using clashing cell-type names. Their graph standardizes cell types with a three-level taxonomy of 79 categories anchored to the Cell Ontology. It adds molecular fingerprints from two large human brain single-cell datasets covering over 4 million cells, and mines published abstracts for curated regulatory evidence records.
A language model kept 25,812 evidence records, and the graph holds 41,532 directed relationships between genes, regulators, and cell types. For prediction tests, the team exported a cleaned subgraph of 19,819 triples spanning 10,660 entities. That model can rank possible regulators and markers for a given cell type, demonstrated on microglia, the brain's immune cells. Chen offers the graph as shared groundwork for comparing brain regulation studies.
Catalog record
| CREATOR | Chuangyu Chen, Xiaomin Ni, Yang Min, Zhen Wang, Zhilan Xu, Yang Zhang, Hao Yu |
|---|---|
| YEAR | 2026 |
| COLLECTION | PAPERS |
| FORMAT | TXT |
| FILE SIZE | 49 KB |
| LICENSE | https://creativecommons.org/licenses/by/4.0 |
| RIGHTS | CC BY |
| SOURCE | Europe PMC |