Multi-Modal Protein Knowledge Graph Construction and Applications (Student Abstract)

Existing data-centric methods for protein science generally cannot sufficiently capture and leverage biology knowledge, which may be crucial for many protein tasks. To facilitate research in this field, we create ProteinKG65, a knowledge graph for protein science. Using gene ontology and Uniprot knowledge base as a basis, we transform and integrate various kinds of knowledge with aligned descriptions and protein sequences, respectively, to GO terms and protein entities. ProteinKG65 is mainly dedicated to providing a specialized protein knowledge graph, bringing the knowledge of Gene Ontology to protein function and structure prediction. We also illustrate the potential applications of ProteinKG65 with a prototype. Our dataset can be downloaded at https://w3id.org/proteinkg65.

Authors

• Siyuan Cheng Zhejiang University Zhejiang University - Ant Group Joint Laboratory of Knowledge Graph Platform and Content Group, Tencent
• Xiaozhuan Liang School of Software Technology, Zhejiang University, Hangzhou, China Alibaba-Zhejiang University Joint Research Institute of Frontier Technologies
• Zhen Bi Zhejiang University Zhejiang University - Ant Group Joint Laboratory of Knowledge Graph
• Huajun Chen College of Computer Science and Technology, Zhejiang University ZJU-Ant Group Joint Lab of Knowledge Graph Zhejiang Key Laboratory of Big Data Intelligent Computing
• Ningyu Zhang Zhejiang University Zhejiang University - Ant Group Joint Laboratory of Knowledge Graph

Keywords

• Gene Ontology
• Knowledge Graph
• Protein Science