FONDUE: A Framework for Node Disambiguation and Deduplication Using Network Embeddings
Source abstract
Abstract
Data often have a relational nature that is most easily expressed in a network form, with its main components consisting of nodes that represent real objects and links that signify the relations between these objects. Modeling networks is useful for many purposes, but the efficacy of downstream tasks is often hampered by data quality issues related to their construction. In many constructed networks, ambiguity may arise when a node corresponds to multiple concepts. Similarly, a single entity can be mistakenly represented by several different nodes. In this paper, we formalize both the node disambiguation (NDA) and node deduplication (NDD) tasks to resolve these data quality issues. We then introduce FONDUE, a framework for utilizing network embedding methods for data-driven disambiguation and deduplication of nodes. Given an undirected and unweighted network, FONDUE-NDA identifies nodes that appear to correspond to multiple entities for subsequent splitting and suggests how to split them (node disambiguation), whereas FONDUE-NDD identifies nodes that appear to correspond to same entity for merging (node deduplication), using only the network topology. From controlled experiments on benchmark networks, we find that FONDUE-NDA is substantially and consistently more accurate with lower computational cost in identifying ambiguous nodes, and that FONDUE-NDD is a competitive alternative for node deduplication, when compared to state-of-the-art alternatives.
Source: crossref · Quality: baseline
Research context
OpenAlex topics: Data Quality and Management · Data-Driven Disease Surveillance · Advanced Graph Neural Networks
SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.
Affiliations
AIDA, IDLab-ELIS, Ghent University, 9052 Ghent, Belgium
Funding
European Research Council · Fonds Wetenschappelijk Onderzoek · Vlaamse regering
References (34)
Show source-provided references
1. National Library of Medicine (2021, October 20). PubMed Dataset, Available online: https://pubmed.ncbi.nlm.nih.gov/help/.
2. DIP: The database of interacting proteins10.1093/nar/28.1.289 ↗
3. Auer, S., Bizer, C., Kobilarov, G., Lehmann, J., Cyganiak, R., and Ives, Z. (2007). Dbpedia: A nucleus for a web of open data. The Semantic Web, Springer.10.1007/978-3-540-76298-0_52 ↗
4. Wang, X., Cui, P., Wang, J., Pei, J., Zhu, W., and Yang, S. (2017, January 4–9). Community preserving network embedding. Proceedings of the Thirty-First AAAI Conference on Artificial Intelligence, San Francisco, CA, USA.10.1609/aaai.v31i1.10488 ↗
5. Resolution limit in community detection10.1073/pnas.0605965104 ↗
6. Kang, B., Lijffijt, J., and De Bie, T. (2019, January 6–9). Conditional Network Embeddings. Proceedings of the International Conference on Learning Representations, New Orleans, LA, USA.
7. A Unified Probabilistic Framework for Name Disambiguation in Digital Library10.1109/TKDE.2011.13 ↗
8. ORCID: A system to uniquely identify researchers10.1087/20120404 ↗
9. Zhang, B., and Al Hasan, M. (2017). Name Disambiguation in Anonymized Graphs Using Network Embedding. Proceedings of the 2017 ACM on Conference on Information and Knowledge Management, CIKM ’17, Singapore, 6–10 November 2017, ACM.10.1145/3132847.3132873 ↗
10. Parravicini, A., Patra, R., Bartolini, D.B., and Santambrogio, M.D. (July, January 30). Fast and Accurate Entity Linking via Graph Embedding. Proceedings of the 2nd Joint International Workshop on Graph Data Management Experiences & Systems (GRADES) and Network Data Analytics (NDA), GRADES-NDA’19, New York, NY, USA.
11. Entity linking with a knowledge base: Issues, techniques, and solutions10.1109/TKDE.2014.2327028 ↗
12. Zhang, Y., Zhang, F., Yao, P., and Tang, J. (2018, January 19–23). Name Disambiguation in AMiner: Clustering, Maintenance, and Human in the Loop. Proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, London, UK.10.1145/3219819.3219859 ↗
13. Ma, X., Wang, R., and Zhang, Y. (2019). Author name disambiguation in heterogeneous academic networks. International Conference on Web Information Systems and Applications, Springer.10.1007/978-3-030-30952-7_15 ↗
14. Lerchenmueller, M.J., and Sorenson, O. (2016). Author disambiguation in PubMed: Evidence on the precision and recall of author-ity among NIH-funded scientists. PLoS ONE, 11.10.1371/journal.pone.0158731 ↗
15. Ma, Y., Wu, Y., and Lu, C. (2020). A Graph-Based Author Name Disambiguation Method and Analysis via Information Theory. Entropy, 22.10.3390/e22040416 ↗
16. Name disambiguation from link data in a collaboration graph using temporal and topological features10.1007/s13278-015-0249-1 ↗
17. Hermansson, L., Kerola, T., Johansson, F., Jethava, V., and Dubhashi, D. (November, January 27). Entity disambiguation in anonymized graphs using graph kernels. Proceedings of the 22nd ACM international conference on Information & Knowledge Management, San Francisco, CA, USA.
18. Xu, J., Shen, S., Li, D., and Fu, Y. (2018, January 22–26). A network-embedding based method for author disambiguation. Proceedings of the 27th ACM International Conference on Information and Knowledge Management, Turin, Italy.10.1145/3269206.3269272 ↗
19. Chen, T., and Sun, Y. (2017, January 6–10). Task-guided and path-augmented heterogeneous network embedding for author identification. Proceedings of the Tenth ACM International Conference on Web Search and Data Mining, Cambridge, UK.10.1145/3018661.3018735 ↗
20. Cavallari, S., Zheng, V.W., Cai, H., Chang, K.C.C., and Cambria, E. (2017, January 6–10). Learning Community Embedding with Community Detection and Node Embedding on Graphs. Proceedings of the 2017 ACM on Conference on Information and Knowledge Management, CIKM ’17, Singapore.10.1145/3132847.3132925 ↗
21. Weichselbraun, A., Kuntschik, P., and Brasoveanu, A.M. (2019, January 20–23). Name variants for improving entity discovery and linking. Proceedings of the 2nd Conference on Language, Data and Knowledge (LDK 2019), Schloss Dagstuhl-Leibniz-Zentrum fuer Informatik, Leipzig, Germany.
22. Graph ranking for collective named entity disambiguation10.3115/v1/P14-2013 ↗
23. Guo, Y., Che, W., Liu, T., and Li, S. (2011, January 7–13). A graph-based method for entity linking. Proceedings of the 5th International Joint Conference on Natural Language Processing, Chiang Mai, Thailand.
24. Tang, J., Qu, M., Wang, M., Zhang, M., Yan, J., and Mei, Q. (2015, January 18–22). Line: Large-scale information network embedding. Proceedings of the 24th International Conference on World Wide Web, Florence, Italy.10.1145/2736277.2741093 ↗
25. Semidefinite relaxation and nonconvex quadratic optimization10.1080/10556789808805690 ↗
26. Semidefinite relaxation of quadratic optimization problems10.1109/MSP.2010.936019 ↗
27. The folded normal distribution10.1080/00401706.1961.10489974 ↗
28. Subjective interestingness of subgraph patterns10.1007/s10994-015-5539-3 ↗
29. Leskovec, J., and Krevl, A. (2021, October 20). SNAP Datasets: Stanford Large Network Dataset Collection. Available online: http://snap.stanford.edu/data.
30. Goethals, B., Le Page, W., and Mampaey, M. (2010, January 22–26). Mining interesting sets and rules in relational databases. Proceedings of the 2010 ACM Symposium on Applied Computing, Sierre, Switzerland.10.1145/1774088.1774299 ↗
31. The BioGRID interaction database: 2008 update10.1093/nar/gkm1001 ↗
32. Knuth, D.E. (1993). The Stanford GraphBase: A Platform for Combinatorial Computing, AcM Press.
33. The structure of scientific collaboration networks10.1073/pnas.98.2.404 ↗
34. Cumulated Gain-Based Evaluation of IR Techniques10.1145/582415.582418 ↗