Researcher profile

Yibin Wang

Yibin Wang contributes to research discovery and scholarly infrastructure.

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Artificial Intelligence Computer Vision cs.CY Genomics Information Retrieval Machine Learning

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preprint2026arXiv

A Linear-Transformer Hybrid for SNP-Based Genotype-to-Phenotype Prediction in Grapevine

Robust genotype-to-phenotype (G2P) prediction is essential for accelerating breeding decisions and genetic gain. However, it remains challenging to measure complex traits under variable field conditions and across years. In this study, we propose a linear-Transformer approach, LiT-G2P (Linear-Transformer Genotype-to-Phenotype), an automated predictive framework that integrates additive genetic variance effects with Transformer-based nonlinear interactions using genome-wide single-nucleotide polymorphisms (SNPs) data. We evaluated LiT-G2P on a panel of diverse grape accessions, genotyped with SNP markers and measured for phenotypes across two consecutive years. Target phenotypic traits include leaf hair density and trichome density of grapevines. Across both single-year and cross-year testing scenarios, LiT-G2P consistently improves prediction performance compared with baseline models. For hair density, LiT-G2P achieves the lowest error in both single-year and cross-year evaluations, with RMSEs of 0.469 and 0.454, respectively, while maintaining strong tolerance accuracies of 79.2% and 74.6%, respectively. For trichome density, LiT-G2P also presents the best overall G2P performance. In addition, we extract model-prioritized SNPs from attention weights and apply genotype-stratified analysis to provide interpretable candidate marker for downstream validation. These results demonstrate that integrating stable additive effects with learned interaction patterns can enhance cross-year robustness and support practical SNP-based predictive modeling for genomic selection.

preprint2026arXiv

An LLM-RAG Approach for Healthy Eating Index-Informed Personalized Food Recommendations

Diet quality is a leading determinant of chronic disease risk. Advances in artificial intelligence (AI) have enabled food recommendation systems to adapt suggestions to user preferences and health goals. However, most current systems rely on loosely curated food databases and provide limited connection to a validated index. In this study, we propose a Healthy Eating Index (HEI) informed retrieval-augmented generation (RAG) framework that combines standardized nutrition databases with large language models (LLMs) for personalized food recommendations. Our proposed method anchors retrieval in the National Health and Nutrition Examination Survey (NHANES) and the Food Patterns Equivalents Database (FPED). A food-level embedding space is constructed from FPED-derived textual descriptions. For each entity, the system computes baseline HEI scores, retrieves candidate foods for intake recommendations, and estimates the HEI impact of simple substitutions or additions. A constrained RAG pipeline instantiated with a pretrained OpenAI LLM generates personalized recommendations and sources based on nutrient profiles and HEI contributions. The simulation results showed a mean HEI improvement of 6.45, with the proportion of users HEI over 50 increasing from 45.12 to 61.26. Quantile analysis revealed consistent improved shifts across the HEI distribution. Our findings suggest that the proposed LLM-RAG-based AI systems can support more precise, explainable, and personalized nutrition guidance to improve diet quality.

preprint2026arXiv

SetCon: Towards Open-Ended Referring Segmentation via Set-Level Concept Prediction

Referring segmentation grounds natural-language queries to pixel-level masks, but extending it to complex scenarios with multiple instances, cross-category groups, or open-ended target sets remains challenging. Previous Large Vision Language Model (LVLM)-based methods represent referred targets with one or more special tokens sequentially, treating multiple targets as separate outputs rather than a coherent set and offering little incentive to capture set-level properties such as completeness and mutual exclusivity. We reformulate open-ended referring segmentation as explicit set-level concept prediction and propose Set-Concept Segmentation (SetCon), which uses LVLM-generated natural-language concepts, instead of segmentation-specific tokens, as semantic conditions for joint mask-set decoding. A hierarchical semantic decomposition first predicts a shared set-level concept defining the target scope and then refines it into fine-grained concept groups aligned with target subsets. To support this, a two-stage annotation pipeline augments existing reasoning segmentation datasets with hierarchical semantic supervision (236k samples, 784k concept phrases). SetCon achieves state-of-the-art results on image benchmarks (+3.3 gIoU on gRefCOCO, +12.1 gIoU on MUSE), with margins that grow as the number of referred targets increases. The concept interface also transfers to video under a detect-and-track setting, yielding new state-of-the-art results on seven referring video benchmarks, including +10.9 J&F on MeViS and +12.4 J&F on Ref-SeCVOS.

preprint2023arXiv

Multi-View MOOC Quality Evaluation via Information-Aware Graph Representation Learning

In this paper, we study the problem of MOOC quality evaluation which is essential for improving the course materials, promoting students' learning efficiency, and benefiting user services. While achieving promising performances, current works still suffer from the complicated interactions and relationships of entities in MOOC platforms. To tackle the challenges, we formulate the problem as a course representation learning task-based and develop an Information-aware Graph Representation Learning(IaGRL) for multi-view MOOC quality evaluation. Specifically, We first build a MOOC Heterogeneous Network (HIN) to represent the interactions and relationships among entities in MOOC platforms. And then we decompose the MOOC HIN into multiple single-relation graphs based on meta-paths to depict the multi-view semantics of courses. The course representation learning can be further converted to a multi-view graph representation task. Different from traditional graph representation learning, the learned course representations are expected to match the following three types of validity: (1) the agreement on expressiveness between the raw course portfolio and the learned course representations; (2) the consistency between the representations in each view and the unified representations; (3) the alignment between the course and MOOC platform representations. Therefore, we propose to exploit mutual information for preserving the validity of course representations. We conduct extensive experiments over real-world MOOC datasets to demonstrate the effectiveness of our proposed method.

preprint2022arXiv

Rice Diseases Detection and Classification Using Attention Based Neural Network and Bayesian Optimization

In this research, an attention-based depthwise separable neural network with Bayesian optimization (ADSNN-BO) is proposed to detect and classify rice disease from rice leaf images. Rice diseases frequently result in 20 to 40 \% corp production loss in yield and is highly related to the global economy. Rapid disease identification is critical to plan treatment promptly and reduce the corp losses. Rice disease diagnosis is still mainly performed manually. To achieve AI assisted rapid and accurate disease detection, we proposed the ADSNN-BO model based on MobileNet structure and augmented attention mechanism. Moreover, Bayesian optimization method is applied to tune hyper-parameters of the model. Cross-validated classification experiments are conducted based on a public rice disease dataset with four categories in total. The experimental results demonstrate that our mobile compatible ADSNN-BO model achieves a test accuracy of 94.65\%, which outperforms all of the state-of-the-art models tested. To check the interpretability of our proposed model, feature analysis including activation map and filters visualization approach are also conducted. Results show that our proposed attention-based mechanism can more effectively guide the ADSNN-BO model to learn informative features. The outcome of this research will promote the implementation of artificial intelligence for fast plant disease diagnosis and control in the agricultural field.

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