Yuan He (In Chinese: 何源)

PhD Student

Department of Computer Science

University of Oxford

Hi! I am Yuan He, a PhD candidate in Computer Science, supervised by Professor Ian Horrocks and Professor Bernardo Cuenca Grau at the University of Oxford. My broad research interest lies in the neural-symbolic domain, especially with KR+NLP. For my PhD, the primary research focuses on applying language models to address ontology engineering tasks including alignment, completion, embeddings, etc.

I am developing and maintaining a Python package, DeepOnto, which is associated with all my PhD works.

Events (recent two years)

  • {Oct 2022} Nominated as Best Resource Paper candidate in ISWC-2022. [video][tweet]

  • {Oct 2022} Organizing the Bio-ML track of OAEI. [track]

  • {Sep 2022} Paper accepted in DL4KG@ISWC-2022 workshop.

  • {Aug 2022} Joined the Program Committee of AAAI-2023.

  • {Jul 2022} Joined the Program Committee of ISWC-2022.

  • {Jul 2022} Paper accepted in ISWC-2022. [arxiv]

  • {Jul 2022} Won the Best Research Report Award in ISWS-2022. [certificate]

  • {Jul 2022} Attending International Semantic Web Summer School (ISWS-2022). [website]

  • {Feb 2022} Presentation for the paper accepted in AAAI-2022. [slides][video]

  • {Jan 2022} Teaching classes for the Knowledge Representation & Reasoning (KRR) course at Oxford.

  • {Dec 2021} Started to develop DeepOnto. [repository]

  • {Dec 2021} Paper accepted in AAAI-2022. [arxiv]

  • {Dec 2021} Passed the Transfer of Status (for Oxford PhD).

  • {Oct 2021} Presentation for the paper accepted in OM@ISWC-2021 workshop. [slides]

  • {Aug 2021} Paper accepted in OM@ISWC-2021 workshop.

  • {Jan 2021} Started the project: Oxford-SRUK Ontology Alignment.

Events (past)

  • {Dec 2020} Presentation for the paper accepted in AACL-2020. [slides][video]

  • {Nov 2020} Teaching Support for MAT Marking at Oxford.

Education

{Oct 2020 - Present}

DPhil in Computer Science - University of Oxford - [Fully funded]


{Sep 2016 - Jul 2020}

BSc (Hons) AI and Maths - University of Edinburgh - [Ranked top]

Publications

  • Yuan He, Jiaoyan Chen, Hang Dong, Ernesto Jiménez-Ruiz, Ali Hadian and Ian Horrocks. “Machine Learning-Friendly Biomedical Datasets for Equivalence and Subsumption Ontology Matching.” In: The 21st International Semantic Web Conference (ISWC-2022). [arxiv] [Best Resource Paper Candidate]


  • Ryan Brate, Minh-Hoang Dang, Fabian Hoppe, Yuan He, Albert Meroño Peñuela, and Vijay Sadashivaiah. “Improving Language Model Predictions via Prompts Enriched with Knowledge Graphs”. In: Workshop on Deep Learning for Knowledge Graphs (DL4KG@ISWC). 2022. [paper]


  • Jiaoyan Chen, Yuan He, Ernesto Jiménez-Ruiz, Hang Dong and Ian Horrocks. “Contextual Semantic Embeddings for Ontology Subsumption Prediction.” ArXiv abs/2202.09791 (2022). [under review]


  • Yuan He, Jiaoyan Chen, Denvar Antonyrajah, and Ian Horrocks. “BERTMap: A BERT-based Ontology Alignment System”. In: Proceedings of the 36th AAAI Conference on Artificial Intelligence (AAAI-2022). [arxiv]

  • Jiaoyan Chen, Yuxia Geng, Zhuo Chen, Jeff Z. Pan, Yuan He, Wen Zhang, Ian Horrocks and Huajun Chen. “Low-resource Learning with Knowledge Graphs: A Comprehensive Survey.” ArXiv abs/2112.10006 (2021). [under review]


  • Yuan He, Jiaoyan Chen, Denvar Antonyrajah, and Ian Horrocks. “Biomedical Ontology Alignment with BERT”. The Sixteenth International Workshop on Ontology Matching (OM@ISWC-2021).[paper]


  • Yuan He and Shay B. Cohen (Dec. 2020). “English-to-Chinese Transliteration with Phonetic Auxiliary Task”. In: Proceedings of the 1st Conference of the Asia-Pacific Chapter of the Association for Computational Linguistics and the 10th International Joint Conference on Natural Language Processing (AACL-2020). [paper]


Professional Services

  • Organizer of the OAEI Track in ISWC-2022.

  • Reviewer of the Journal of Bioinformatics.

  • PC Member of the Association for the Advancement of Artificial Intelligence (AAAI-2023).

  • PC Member of the International Semantic Web Conference (ISWC-2022).

  • Reviewer of the European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML PKDD-2022).

  • Reviewer of the Journal of Biomedical Semantics (JBSW).

  • PC Member of the Extended Semantic Web Conference (ESWC-2022).

  • Reviewer of the Journal of Web Semantics (JOWS).

Selected Awards

  • Best Resource Paper Candidate at the International Semantic Web Conference (ISWC-2022).

  • Best Research Report Award from ISWS-2022. [certificate]

  • PhD Scholarship from Samsung Research UK (SRUK). [fully funded]

  • Received The 2020 Joint Class Prize (Ranked Top 1) for the degree of BSc in Artificial Intelligence and Mathematics. [certificate]


Amateur Works

  • [Art] I am an amateur music composer, singer, pianist and novel/poetry/prose writer (specific to Chinese literature).

    • Please check the post here to view the links to my work if you are interested to know me beyond the academic scope.

  • [Sport] I joined the university badminton squad (team 3 of OuBaC) at Oxford.


Contact

Résumé :

Email Address: