Multi-view BLUP: a promising solution for post-omics data integrative prediction

Bingjie Wu; Huijuan Xiong; Lin Zhuo; Yingjie Xiao; Jianbing Yan; Wenyu Yang

doi:10.1016/j.jgg.2024.11.017

Volume 52 Issue 6

Jun. 2025

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Article Navigation > Journal of Genetics and Genomics > 2025 > 52(6): 839-847

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Multi-view BLUP: a promising solution for post-omics data integrative prediction

doi: 10.1016/j.jgg.2024.11.017

a. National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei 430070, China;
b. College of Informatics, Huazhong Agricultural University, Wuhan, Hubei 430070, China;
c. Hubei Hongshan Laboratory, Wuhan, Hubei 430070, China

Funds:

This work was supported by National Natural Science Foundation of China (32122066, 32201855) and STI2030—Major Projects (2023ZD04076).

Received Date: 2024-07-23
Accepted Date: 2024-11-27
Rev Recd Date: 2024-11-27

Available Online: 2025-07-11

Publish Date: 2024-12-05

Abstract

Abstract

Phenotypic prediction is a promising strategy for accelerating plant breeding. Data from multiple sources (called multi-view data) can provide complementary information to characterize a biological object from various aspects. By integrating multi-view information into phenotypic prediction, a multi-view best linear unbiased prediction (MVBLUP) method is proposed in this paper. To measure the importance of multiple data views, the differential evolution algorithm with an early stopping mechanism is used, by which we obtain a multi-view kinship matrix and then incorporate it into the BLUP model for phenotypic prediction. To further illustrate the characteristics of MVBLUP, we perform the empirical experiments on four multi-view datasets in different crops. Compared to the single-view method, the prediction accuracy of the MVBLUP method has improved by 0.038–0.201 on average. The results demonstrate that the MVBLUP is an effective integrative prediction method for multi-view data.
- Multi-view data,
- Best linear unbiased prediction,
- Similarity function,
- Phenotype prediction,
- Differential evolution algorithm

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References(39)

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