single-jc.php

JACIII Vol.30 No.4 pp. 1056-1073
(2026)

Research Paper:

Category-Centric Initialization for Knowledge Graph Embedding

Runyu Ni ORCID Icon, Hiroki Shibata ORCID Icon, and Yasufumi Takama ORCID Icon

School of Systems Design, Tokyo Metropolitan University
6-6 Ashigaoka, Hino, Tokyo 191-0065, Japan

Received:
November 9, 2025
Accepted:
January 31, 2026
Published:
July 20, 2026
Keywords:
initialization, knowledge graph, knowledge graph embedding, category information, representation learning.
Abstract

This paper proposes a category-centric initialization that introduces prior knowledge for knowledge graph embedding (KGE) at a low cost. KGE is a technology that maps symbols to embeddings to utilize large-scale knowledge graphs, and it has been widely applied because of its simplicity and efficiency. However, the initialization challenge with this technology has long been overlooked. This critical issue has implications for the training cost, the stability of training, and even the final performance of the model. KGE predominantly utilizes random initialization, which overlooks the wealth of prior knowledge embedded within knowledge graphs. To counteract this, pre-training initialization has been introduced as a way to utilize the prior knowledge. While this strategy can lead to enhanced model performance and quicker convergence rates, it increases computational demands and restricts application breadth. To address these challenges, we propose a novel initialization called category-centric initialization (CCI). CCI is designed to be universally applicable across any scenario involving the training of KGE models from scratch. It utilizes the weighted sum of the category embedding and the random embedding as the initial embedding of entities. By integrating explicit category information into the random initialization, CCI effectively utilizes prior knowledge while avoiding excessive computational cost. The results of experiments demonstrate that the proposed method can effectively reduce the training cost of advanced KGE models without degrading the final performance. Additionally, the results of experiments without category information show that our method can be applied in scenarios where explicit categories are not given to entities.

Category-centric KGE initialization

Category-centric KGE initialization

Cite this article as:
R. Ni, H. Shibata, and Y. Takama, “Category-Centric Initialization for Knowledge Graph Embedding,” J. Adv. Comput. Intell. Intell. Inform., Vol.30 No.4, pp. 1056-1073, 2026.
Data files:
References
  1. [1] Q. Wang, Z. Mao, B. Wang, and L. Guo, “Knowledge graph embedding: A survey of approaches and applications,” IEEE Trans. Knowl. Data Eng., Vol.29, No.12, pp. 2724-2743, 2017. https://doi.org/10.1109/TKDE.2017.2754499
  2. [2] A. Rossi, D. Barbosa, D. Firmani, A. Matinata, and P. Merialdo, “Knowledge graph embedding for link prediction: A comparative analysis,” ACM Trans. Knowl. Discov. Data, Vol.15, No.2, Article No.14, 2021. https://doi.org/10.1145/3424672
  3. [3] X. Ge, Y. C. Wang, B. Wang, and C.-C. J. Kuo, “Knowledge graph embedding: An overview,” APSIPA Trans. Signal Inf. Process., Vol.13, No.1, 2024. https://doi.org/10.1561/116.00000065
  4. [4] A. Bordes, N. Usunier, A. Garcia-Durán, J. Weston, and O. Yakhnenko, “Translating embeddings for modeling multi-relational data,” Proc. 27th Int. Conf. Neural Inf. Process. Syst. (NIPS’13), Vol.2, pp. 2787-2795, 2013.
  5. [5] Y. Cao, X. Wang, X. He, Z. Hu, and T.-S. Chua, “Unifying knowledge graph learning and recommendation: Towards a better understanding of user preferences,” Proc. World Wide Web Conf. (WWW’19), pp. 151-161, 2019. https://doi.org/10.1145/3308558.3313705
  6. [6] X. Wang, X. He, Y. Cao, M. Liu, and T.-S. Chua, “KGAT: Knowledge graph attention network for recommendation,” Proc. 25th ACM SIGKDD Int. Conf. Knowl. Discov. Data (KDD’19), pp. 950-958, 2019. https://doi.org/10.1145/3292500.3330989
  7. [7] Q. Ai, V. Azizi, X. Chen, and Y. Zhang, “Learning heterogeneous knowledge base embeddings for explainable recommendation,” Algorithms, Vol.11, No.9, Article No.137, 2018. https://doi.org/10.3390/a11090137
  8. [8] Q. Lu, W. Du, W. Xu, and J. Ma, “KSGAN: Knowledge-aware subgraph attention network for scholarly community recommendation,” Inf. Syst., Vol.119, Article No.102282, 2023. https://doi.org/10.1016/j.is.2023.102282
  9. [9] S. K. Mohamed, A. Nounu, and V. Nováček, “Biological applications of knowledge graph embedding models,” Brief. Bioinform., Vol.22, No.2, pp. 1679-1693, 2021. https://doi.org/10.1093/bib/bbaa012
  10. [10] M. Zitnik, M. Agrawal, and J. Leskovec, “Modeling polypharmacy side effects with graph convolutional networks,” Bioinformatics, Vol.34, No.13, pp. i457-i466, 2018. https://doi.org/10.1093/bioinformatics/bty294
  11. [11] C. Xiong, R. Power, and J. Callan, “Explicit semantic ranking for academic search via knowledge graph embedding,” Proc. 26th Int. Conf. World Wide Web (WWW’17), pp. 1271-1279, 2017. https://doi.org/10.1145/3038912.3052558
  12. [12] M. N. Alam and M. M. Ali, “Loan default risk prediction using knowledge graph,” 14th Int. Conf. Knowl. Smart Technol. (KST), pp. 34-39, 2022. https://doi.org/10.1109/KST53302.2022.9729073
  13. [13] Y. Liu, Q. Zeng, H. Yang, and A. Carrio, “Stock price movement prediction from financial news with deep learning and knowledge graph embedding,” Proc. 15th Int. Workshop Knowl. Manag. Acquis. Intell. Syst., pp. 102-113, 2018. https://doi.org/10.1007/978-3-319-97289-3_8
  14. [14] J. Deng et al., “A unified model for video understanding and knowledge embedding with heterogeneous knowledge graph dataset,” Proc. 2023 ACM Int. Conf. Multimed. Retr., pp. 95-104, 2023. https://doi.org/10.1145/3591106.3592258
  15. [15] H. Ding et al., “Genre classification empowered by knowledge-embedded music representation,” IEEE/ACM Trans. Audio Speech Lang. Process., Vol.32, pp. 2764-2776, 2024. https://doi.org/10.1109/TASLP.2024.3402115
  16. [16] B. Yang, W.-T. Yih, X. He, J. Gao, and L. Deng, “Embedding entities and relations for learning and inference in knowledge bases,” 3rd Int. Conf. Learn. Represent., 2015.
  17. [17] T. Trouillon, J. Welbl, S. Riedel, É. Gaussier, and G. Bouchard, “Complex embeddings for simple link prediction,” Proc. 33rd Int. Conf. Mach. Learn., pp. 2071-2080, 2016.
  18. [18] Z. Wang, J. Zhang, J. Feng, and Z. Chen, “Knowledge graph embedding by translating on hyperplanes,” Proc. AAAI Conf. Artif. Intell., Vol.28, No.1, pp. 1112-1119, 2014. https://doi.org/10.1609/aaai.v28i1.8870
  19. [19] Z. Sun, Z.-H. Deng, J.-Y. Nie, and J. Tang, “RotatE: Knowledge graph embedding by relational rotation in complex space,” 7th Int. Conf. Learn. Represent., 2019.
  20. [20] D. Krompaß, S. Baier, and V. Tresp, “Type-constrained representation learning in knowledge graphs,” Proc. 14th Int. Semant. Web Conf., pp. 640-655, 2015. https://doi.org/10.1007/978-3-319-25007-6_37
  21. [21] G. Niu, B. Li, Y. Zhang, and S. Pu, “CAKE: A scalable commonsense-aware framework for multi-view knowledge graph completion,” Proc. 60th Annu. Meet. Assoc. Comput. Linguist. (Vol.1: Long Pap.), pp. 2867-2877, 2022. https://doi.org/10.18653/v1/2022.acl-long.205
  22. [22] W. Hu et al., “OGB-LSC: A large-scale challenge for machine learning on graphs,” arXiv:2103.09430, 2021. https://doi.org/10.48550/arXiv.2103.09430
  23. [23] P. Bojanowski, E. Grave, A. Joulin, and T. Mikolov, “Enriching word vectors with subword information,” Trans. Assoc. Comput. Linguist., Vol.5, pp. 135-146, 2017. https://doi.org/10.1162/tacl_a_00051
  24. [24] M. Galkin, E. Denis, J. Wu, and W. L. Hamilton, “NodePiece: Compositional and parameter-efficient representations of large knowledge graphs,” 10th Int. Conf. Learn. Represent., 2022.
  25. [25] H. Wang, Y. Wang, D. Lian, and J. Gao, “A lightweight knowledge graph embedding framework for efficient inference and storage,” Proc. 30th ACM Int. Conf. Inf. Knowl. Manag., pp. 1909-1918, 2021. https://doi.org/10.1145/3459637.3482224
  26. [26] M. Chen et al., “Entity-agnostic representation learning for parameter-efficient knowledge graph embedding,” Proc. AAAI Conf. Artif. Intell., Vol.37, No.4, pp. 4182-4190, 2023. https://doi.org/10.1609/aaai.v37i4.25535
  27. [27] M. V. Narkhede, P. P. Bartakke, and M. S. Sutaone, “A review on weight initialization strategies for neural networks,” Artif. Intell. Rev., Vol.55, No.1, pp. 291-322, 2022. https://doi.org/10.1007/s10462-021-10033-z
  28. [28] D. Ruffinelli, S. Broscheit, and R. Gemulla, “You CAN teach an old dog new tricks! On training knowledge graph embeddings,” 8th Int. Conf. Learn. Represent., 2020.
  29. [29] M. Ali et al., “Bringing light into the dark: A large-scale evaluation of knowledge graph embedding models under a unified framework,” IEEE Trans. Pattern Anal. Mach. Intell., Vol.44, No.12, pp. 8825-8845, 2022. https://doi.org/10.1109/TPAMI.2021.3124805
  30. [30] X. Glorot and Y. Bengio, “Understanding the difficulty of training deep feedforward neural networks,” Proc. of the 30th Int. Conf. on Artif. Intell. Stat., pp. 249-256, 2010.
  31. [31] A. M. Saxe, J. L. McClelland, and S. Ganguli, “Exact solutions to the nonlinear dynamics of learning in deep linear neural networks,” 2nd Int. Conf. Learn. Represent., 2014.
  32. [32] C. Chung and J. J. Whang, “Knowledge graph embedding via metagraph learning,” Proc. 44th Int. ACM SIGIR Conf. Res. Dev. Inf. Retr., pp. 2212-2216, 2021. https://doi.org/10.1145/3404835.3463072
  33. [33] V. Kocijan and T. Lukasiewicz, “Knowledge base completion meets transfer learning,” Proc. 2021 Conf. Empir. Methods Nat. Lang. Process., pp. 6521-6533, 2021. https://doi.org/10.18653/v1/2021.emnlp-main.524
  34. [34] L. Yao, C. Mao, and Y. Luo, “KG-BERT: BERT for knowledge graph completion,” arXiv:1909.03193, 2019. https://doi.org/10.48550/arXiv.1909.03193
  35. [35] H. Chen, B. Perozzi, Y. Hu, and S. Skiena, “HARP: Hierarchical representation learning for networks,” Proc. AAAI Conf. Artif. Intell., Vol.32, No.1, pp. 2127-2134, 2018. https://doi.org/10.1609/aaai.v32i1.11849
  36. [36] W. Lin, F. He, F. Zhang, X. Cheng, and H. Cai, “Initialization for network embedding: A graph partition approach,” Proc. 13th Int. Conf. Web Search Data Min., pp. 367-374, 2020. https://doi.org/10.1145/3336191.3371781
  37. [37] C. Moon, P. Jones, and N. F. Samatova, “Learning entity type embeddings for knowledge graph completion,” Proc. 2017 ACM Conf. Inf. Knowl. Manag., pp. 2215-2218, 2017. https://doi.org/10.1145/3132847.3133095
  38. [38] B. Y. Weisfeiler and A. A. Leman, “The reduction of a graph to canonical form and the algebra which appears therein,” G. Ryabov (Trans.), Nauchno-Technicheskaya Informatsia, Vol.2, No.9, pp. 12-16, 1968.
  39. [39] M. Ali et al., “PyKEEN 1.0: A Python library for training and evaluating knowledge graph embeddings,” J. Mach. Learn. Res., Vol.22, No.82, pp. 1-6, 2021.
  40. [40] T. Lacroix, N. Usunier, and G. Obozinski, “Canonical tensor decomposition for knowledge base completion,” Proc. 35th Int. Conf. Mach. Learn., pp. 2863-2872, 2018.
  41. [41] S. Friedland and L.-H. Lim, “Nuclear norm of higher-order tensors,” Mathematics of Computation, Vol.87, No.311, pp. 1255-1281, 2018.
  42. [42] R. Socher, D. Chen, C. D. Manning, and A. Y. Ng, “Reasoning with neural tensor networks for knowledge base completion,” Proc. 27th Int. Conf. Neural Inf. Process. Syst., pp. 926-934, 2013.
  43. [43] Y. Zhao, A. Zhang, R. Xie, K. Liu, and X. Wang, “Connecting embeddings for knowledge graph entity typing,” Proc. 58th Annu. Meet. Assoc. Comput. Linguist., pp. 6419-6428, 2020. https://doi.org/10.18653/v1/2020.acl-main.572
  44. [44] W. Pan, W. Wei, and X.-L. Mao, “Context-aware entity typing in knowledge graphs,” Find. Assoc. Comput. Linguist. EMNLP 2021, pp. 2240-2250, 2021. https://doi.org/10.18653/v1/2021.findings-emnlp.193
  45. [45] X. Ge, Y.-C. Wang, B. Wang, and C. C. J. Kuo, “CORE: A knowledge graph entity type prediction method via complex space regression and embedding,” Pattern Recognit. Lett., Vol.157, pp. 97-103, 2022. https://doi.org/10.1016/j.patrec.2022.03.024
  46. [46] X. Ge, Y. C. Wang, B. Wang, and C.-C. J. Kuo, “TypeEA: Type-associated embedding for knowledge graph entity alignment,” APSIPA Trans. Signal Inf. Process., Vol.12, No.1, 2023. https://doi.org/10.1561/116.00000139
  47. [47] Y.-C. Wang, X. Ge, B. Wang, and C.-C. J. Kuo, “AsyncET: Asynchronous representation learning for knowledge graph entity typing,” Proc. 30th ACM SIGKDD Conf. Knowl. Discov. Data Min., pp. 3267-3276, 2024. https://doi.org/10.1145/3637528.3671832
  48. [48] J. Weston, A. Bordes, O. Yakhnenko, and N. Usunier, “Connecting language and knowledge bases with embedding models for relation extraction,” Proc. 2013 Conf. Empir. Methods Nat. Lang. Process., pp. 1366-1371, 2013.
  49. [49] X. Li, A. Henriksson, M. Duneld, J. Nouri, and Y. Wu, “Evaluating embeddings from pre-trained language models and knowledge graphs for educational content recommendation,” Future Internet, Vol.16, No.1, Article No.12, 2024. https://doi.org/10.3390/fi16010012
  50. [50] S. K. Mohamed, A. Nounu, and V. Nováček, “Drug target discovery using knowledge graph embeddings,” Proc. 34th ACM/SIGAPP Symp. Appl. Comput., pp. 11-18, 2019. https://doi.org/10.1145/3297280.3297282
  51. [51] S. Bonner et al., “Understanding the performance of knowledge graph embeddings in drug discovery,” Artif. Intell. Life Sci., Vol.2, Article No.100036, 2022. https://doi.org/10.1016/j.ailsci.2022.100036
  52. [52] L. Luo, “Combining knowledge graph and artificial intelligence to conduct financial report quality detection research,” J. Adv. Comput. Intell. Intell. Inform., Vol.29, No.4, pp. 787-795, 2025. https://doi.org/10.20965/jaciii.2025.p0787
  53. [53] Z. Wang et al., “Federated recommendation with explicitly encoding item bias,” Proc. AAAI Conf. Artif. Intell., Vol.39, No.12, pp. 12792-12800, 2025. https://doi.org/10.1609/aaai.v39i12.33395
  54. [54] J. Zhu et al., “BGCL: Bi-subgraph network based on graph contrastive learning for cold-start QoS prediction,” Knowl.-Based Syst., Vol.263, Article No.110296, 2023. https://doi.org/10.1016/j.knosys.2023.110296
  55. [55] S. Xie et al., “PBScaler: A bottleneck-aware autoscaling framework for microservice-based applications,” IEEE Trans. on Serv. Comput., Vol.17, No.2, pp. 604-616, 2024. https://doi.org/10.1109/TSC.2024.3376202
  56. [56] L. Liang et al., “KAG: Boosting LLMs in professional domains via knowledge augmented generation,” Companion Proc. ACM Web Conf. 2025, pp. 334-343, 2025. https://doi.org/10.1145/3701716.3715240
  57. [57] D. E. Rumelhart, G. E. Hinton, and R. J. Williams, “Learning internal representations by error propagation,” D. E. Rumelhart, J. L. McClelland, and the PDP Research Group (Eds.), “Parallel Distributed Processing: Explorations in the Microstructure of Cognition, Vol.1, Foundations,” Chapter 8, pp. 318-362, The MIT Press, 1986.
  58. [58] J. Devlin, M.-W. Chang, K. Lee, and K. Toutanova, “BERT: Pre-training of deep bidirectional transformers for language understanding,” Proc. 2019 Conf. N. Am. Chapter Assoc. Comput. Linguist. Hum. Lang. Technol. (NAACL-HLT), Vol.1, pp. 4171-4186, 2019. https://doi.org/10.18653/v1/N19-1423
  59. [59] G. Karypis and V. Kumar, “A fast and high quality multilevel scheme for partitioning irregular graphs,” SIAM J. Sci. Comput., Vol.20, No.1, pp. 359-392, 1998. https://doi.org/10.1137/S1064827595287997
  60. [60] D. E. Rumelhart, G. E. Hinton, and R. J. Williams, “Learning representations by back-propagating errors,” Nature, Vol.323, No.6088, pp. 533-536, 1986. https://doi.org/10.1038/323533a0
  61. [61] D. P. Kingma and J. Ba, “Adam: A method for stochastic optimization,” 3rd Int. Conf. Learn. Represent., 2015.
  62. [62] J. Hao, M. Chen, W. Yu, Y. Sun, and W. Wang, “Universal representation learning of knowledge bases by jointly embedding instances and ontological concepts,” Proc. 25th ACM SIGKDD Int. Conf. Knowl. Discov. Data Min., pp. 1709-1719, 2019. https://doi.org/10.1145/3292500.3330838
  63. [63] W. Xiong, T. Hoang, and W. Y. Wang, “DeepPath: A reinforcement learning method for knowledge graph reasoning,” Proc. 2017 Conf. Empir. Methods Nat. Lang. Process., pp. 564-573, 2017. https://doi.org/10.18653/v1/D17-1060
  64. [64] A. Carlson et al., “Toward an architecture for never-ending language learning,” Proc. AAAI Conf. Artif. Intell., Vol.24, No.1, pp. 1306-1313, 2010. https://doi.org/10.1609/aaai.v24i1.7519
  65. [65] K. Toutanova and D. Chen, “Observed versus latent features for knowledge base and text inference,” Proc. 3rd Workshop Contin. Vector Space Models Their Compos., pp. 57-66, 2015. https://doi.org/10.18653/v1/W15-4007
  66. [66] N. Morgan and H. Bourlard, “Generalization and parameter estimation in feedforward nets: Some experiments,” Proc. 3rd Int. Conf. Neural Inf. Process. Syst., pp. 630-637, 1989.
  67. [67] Y. Bai et al., “Understanding and improving early stopping for learning with noisy labels,” Proc. 35th Int. Conf. Neural Inf. Process. Syst., pp. 24392-24403, 2021.
  68. [68] L. Prechelt, “Early stopping—But when?” G. Montavon, G. B. Orr, and K.-R. Müller, “Neural Networks: Tricks of the Trade (2nd edition),” pp. 53-67, Springer, 2012. https://doi.org/10.1007/978-3-642-35289-8_5
  69. [69] L. Prechelt, “Automatic early stopping using cross validation: Quantifying the criteria,” Neural Netw., Vol.11, No.4, pp. 761-767, 1998. https://doi.org/10.1016/S0893-6080(98)00010-0
  70. [70] T. Caliński and J. Harabasz, “A dendrite method for cluster analysis,” Commun. Stat., Vol.3, No.1, pp. 1-27, 1974. https://doi.org/10.1080/03610927408827101
  71. [71] A. Grover and J. Leskovec, “node2vec: Scalable feature learning for networks,” Proc. 22nd ACM SIGKDD Int. Conf. Knowl. Discov. Data Min., pp. 855-864, 2016. https://doi.org/10.1145/2939672.2939754

*This site is desgined based on HTML5 and CSS3 for modern browsers, e.g. Chrome, Firefox, Safari, Edge, Opera.

Last updated on Jul. 19, 2026