Yingqi Zhao

Yingqi Zhao, Vasilis Efthymiou, Jyrki Nummenmaa et al.

Retrieval-Augmented Generation (RAG) improves reliability of large language models by incorporating external knowledge, but the retrieval process can introduce bias that propagates to generated outputs. This issue is particularly challenging in top-k settings, where multiple documents jointly influence generation. We propose a fairness-aware retrieval framework that models and controls this bias. Our approach combines controlled bias injection via reranking, a position-aware model of bias propagation, and an optimization formulation that balances relevance and fairness. We further introduce a scalable solution based on Quadratic Fairness via Dual Hyperplane Approximation (FARO), which enables efficient optimization through problem decomposition. Experimental results show that our method effectively mitigates generation bias while preserving relevance. This work provides a principled approach for fairness-aware retrieval in RAG systems.

Yingqi Zhao, Kuo Zhan, Pei-Lin Xin et al.

Discriminating the low-abundance hydroxylated proline from hydroxylated proline is crucial for monitoring diseases and eval-uating therapeutic outcomes that require single-molecule sensors. While the plasmonic nanopore sensor can detect the hydrox-ylation with single-molecule sensitivity by surface enhanced Raman spectroscopy (SERS), it suffers from intrinsic fluctuations of single-molecule signals as well as strong interference from citrates. Here, we used the occurrence frequency histogram of the single-molecule SERS peaks to extract overall dataset spectral features, overcome the signal fluctuations and investigate the citrate-replaced plasmonic nanopore sensors for clean and distinguishable signals of proline and hydroxylated proline. By ligand exchange of the citrates by analyte molecules, the representative peaks of citrates decreased with incubation time, prov-ing occupation of the plasmonic hot spot by the analytes. As a result, the discrimination of the single-molecule SERS signals of proline and hydroxylated proline was possible with the convolutional neural network model with 96.6% accuracy.