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Pietro Liò

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49 papers

2 author rows

EAAI Journal 2026 Journal Article

Circuit link prediction, which identifies missing component connections from incomplete netlists, is crucial in analog circuit design automation. However, existing methods face three main challenges: (1) Insufficient use of topological patterns in circuit graphs reduces prediction accuracy; (2) Data scarcity due to the complexity of annotations hinders model generalization; (3) Limited adaptability to various netlist formats restricts model flexibility. We propose Graph Neural Networks Based Analog Circuit Link Prediction (GNN-ACLP), a graph neural networks (GNNs) based method featuring three innovations to tackle these challenges. First, we introduce the SEAL (learning from Subgraphs, Embeddings, and Attributes for Link prediction) framework and achieve port-level accuracy in circuit link prediction. Second, we propose Netlist Babel Fish, a netlist format conversion tool that leverages retrieval-augmented generation (RAG) with a large language model (LLM) to enhance the compatibility of netlist formats. Finally, we build a comprehensive dataset, SpiceNetlist, comprising 775 annotated circuits of 7 different types across 10 component classes. Experiments demonstrate accuracy improvements of 16. 08% on SpiceNetlist, 11. 38% on Image2Net, and 16. 01% on Masala-CHAI compared to the baseline in intra-dataset evaluation, while maintaining accuracy from 92. 05% to 99. 07% in cross-dataset evaluation, demonstrating robust feature transfer capabilities. However, its linear computational complexity makes processing large-scale netlists challenging and requires future addressing.

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AIIM Journal 2026 Journal Article

Integrating probabilistic trees and causal networks for clinical and epidemiological data

Sheresh Zahoor
Pietro Liò
Gaël Dias
Mohammed Hasanuzzaman

Healthcare decision-making requires not only accurate predictions but also insights into how factors influence patient outcomes. While traditional machine learning (ML) models excel at predicting outcomes, such as identifying high-risk patients, they are limited in addressing "what if" questions about interventions. This study introduces the Probabilistic Causal Fusion (PCF) framework, which integrates Causal Bayesian Networks (CBNs) and Probability Trees (PTrees) to extend beyond predictions. PCF leverages causal relationships from CBNs to structure PTrees, enabling both the quantification of factor impacts and the simulation of hypothetical interventions. The framework is evaluated on three clinically diverse, real-world datasets, MIMIC-IV, Framingham Heart Study, and BRFSS (Diabetes), demonstrating consistent predictive performance comparable to conventional ML models, while offering enhanced interpretability and causal reasoning capabilities. In contrast to conventional approaches focused solely on prediction, PCF offers a unified framework for prediction, intervention modelling, and counterfactual analysis, forming a holistic toolkit for clinical decision support. To enhance interpretability, PCF incorporates sensitivity analysis and SHapley Additive exPlanations (SHAP). Sensitivity analysis quantifies the influence of causal parameters on outcomes such as Length of Stay (LOS), Coronary Heart Disease (CHD), and Diabetes, while SHAP highlights the importance of individual features in predictive modelling. This dual-layered interpretability offers both macro-level insights into causal pathways and micro-level explanations for individual predictions. By combining causal reasoning with predictive modelling, PCF bridges the gap between clinical intuition and data-driven insights. Its ability to uncover relationships between modifiable factors and simulate hypothetical scenarios provides clinicians with a clearer understanding of causal pathways. This approach supports more informed, evidence-based decision-making, offering a robust framework for addressing complex questions in diverse healthcare settings.

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AIIM Journal 2025 Journal Article

A survey for large language models in biomedicine

Chong Wang
Mengyao Li
Junjun He
Zhongruo Wang
Erfan Darzi
Zan Chen
Jin Ye
Tianbin Li

Recent breakthroughs in large language models (LLMs) offer unprecedented natural language understanding and generation capabilities. However, existing surveys on LLMs in biomedicine often focus on specific applications or model architectures, lacking a comprehensive analysis that integrates the latest advancements across various biomedical domains. This review, based on an analysis of 484 publications sourced from databases including PubMed, Web of Science, and arXiv, provides an in-depth examination of the current landscape, applications, challenges, and prospects of LLMs in biomedicine, distinguishing itself by focusing on the practical implications of these models in real-world biomedical contexts. Firstly, we explore the capabilities of LLMs in zero-shot learning across a broad spectrum of biomedical tasks, including diagnostic assistance, drug discovery, and personalized medicine, among others, with insights drawn from 137 key studies. Then, we discuss adaptation strategies of LLMs, including fine-tuning methods for both uni-modal and multi-modal LLMs to enhance their performance in specialized biomedical contexts where zero-shot fails to achieve, such as medical question answering and efficient processing of biomedical literature. Finally, we discuss the challenges that LLMs face in the biomedicine domain including data privacy concerns, limited model interpretability, issues with dataset quality, and ethics due to the sensitive nature of biomedical data, the need for highly reliable model outputs, and the ethical implications of deploying AI in healthcare. To address these challenges, we also identify future research directions of LLM in biomedicine including federated learning methods to preserve data privacy and integrating explainable AI methodologies to enhance the transparency of LLMs. As this field of LLM rapidly evolves, continued research and development are essential to fully harness the capabilities of LLMs in biomedicine while ensuring their responsible and effective deployment.

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AAAI Conference 2025 Conference Paper

Deep Hypergraph Neural Networks with Tight Framelets

Ming Li
Yujie Fang
Yi Wang
Han Feng
Yongchun Gu
Lu Bai
Pietro Liò

Hypergraphs provide a flexible framework for modeling high-order (complex) interactions among multiple entities, extending beyond traditional pairwise correlations in graph structures. However, deep hypergraph neural networks (HGNNs) often face the challenge of oversmoothing with increasing depth, similar to issues in graph neural networks (GNNs). While oversmoothing in GNNs has been extensively studied, its implications in relation to hypergraphs are less explored. This paper addresses this gap by first theoretically exploring the reasons behind oversmoothing in deep HGNNs. Our novel insights suggest that a spectral-based hypergraph convolution, equipped with both low-pass and high-pass filters, can potentially mitigate these effects. Motivated by these findings, we introduce FrameHGNN, a framework that utilizes framelet-based hypergraph convolutions integrating tight framelet transforms with both low-pass and high-pass components, as well as the commonly used strategies in designing deep GNN architecture: initial residual and identity mappings. The experiment results on diverse benchmark datasets demonstrate that FrameHGNN outperforms several state-of-the-art models, effectively reducing oversmoothing while improving predictive accuracy. Our contributions not only advance the theoretical understanding of deep hypergraph learning but also provide a practical spectral-based approach for HGNNs, emphasizing the design of multifrequency channels.

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AIIM Journal 2025 Journal Article

Design and use of a Denoising Convolutional Autoencoder for reconstructing electrocardiogram signals at super resolution

Ugo Lomoio
Pierangelo Veltri
Pietro Hiram Guzzi
Pietro Liò

Electrocardiogram signals play a pivotal role in cardiovascular diagnostics, providing essential information on electrical hearth activity. However, inherent noise and limited resolution can hinder an accurate interpretation of the recordings. In this paper an advanced Denoising Convolutional Autoencoder designed to process electrocardiogram signals, generating super-resolution reconstructions is proposed; this is followed by in-depth analysis of the enhanced signals. The autoencoder receives a signal window (of 5 s) sampled at 50 Hz (low resolution) as input and reconstructs a denoised super-resolution signal at 500 Hz. The proposed autoencoder is applied to publicly available datasets, demonstrating optimal performance in reconstructing high-resolution signals from very low-resolution inputs sampled at 50 Hz. The results were then compared with current state-of-the-art for electrocardiogram super-resolution, demonstrating the effectiveness of the proposed method. The method achieves a signal-to-noise ratio of 12. 20 dB, a mean squared error of 0. 0044, and a root mean squared error of 4. 86%, which significantly outperforms current state-of-the-art alternatives. This framework can effectively enhance hidden information within signals, aiding in the detection of heart-related diseases.

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ICML Conference 2025 Conference Paper

EduLLM: Leveraging Large Language Models and Framelet-Based Signed Hypergraph Neural Networks for Student Performance Prediction

Ming Li 0065
Yukang Cheng
Lu Bai 0001
Feilong Cao
Ke Lv 0002
Jiye Liang
Pietro Liò

The growing demand for personalized learning underscores the importance of accurately predicting students’ future performance to support tailored education and optimize instructional strategies. Traditional approaches predominantly focus on temporal modeling using historical response records and learning trajectories. While effective, these methods often fall short in capturing the intricate interactions between students and learning content, as well as the subtle semantics of these interactions. To address these gaps, we present EduLLM, the first framework to leverage large language models in combination with hypergraph learning for student performance prediction. The framework incorporates FraS-HNN ($\underline{\mbox{Fra}}$melet-based $\underline{\mbox{S}}$igned $\underline{\mbox{H}}$ypergraph $\underline{\mbox{N}}$eural $\underline{\mbox{N}}$etworks), a novel spectral-based model for signed hypergraph learning, designed to model interactions between students and multiple-choice questions. In this setup, students and questions are represented as nodes, while response records are encoded as positive and negative signed hyperedges, effectively capturing both structural and semantic intricacies of personalized learning behaviors. FraS-HNN employs framelet-based low-pass and high-pass filters to extract multi-frequency features. EduLLM integrates fine-grained semantic features derived from LLMs, synergizing with signed hypergraph representations to enhance prediction accuracy. Extensive experiments conducted on multiple educational datasets demonstrate that EduLLM significantly outperforms state-of-the-art baselines, validating the novel integration of LLMs with FraS-HNN for signed hypergraph learning.