RAGraph: A General Retrieval-Augmented Graph Learning Framework

Graph Neural Networks (GNNs) have become essential in interpreting relational data across various domains, yet, they often struggle to generalize to unseen graph data that differs markedly from training instances. In this paper, we introduce a novel framework called General Retrieval-Augmented Graph Learning (RAGraph), which brings external graph data into the general graph foundation model to improve model generalization on unseen scenarios. On the top of our framework is a toy graph vector library that we established, which captures key attributes, such as features and task-specific label information. During inference, the RAGraph adeptly retrieves similar toy graphs based on key similarities in downstream tasks, integrating the retrieved data to enrich the learning context via the message-passing prompting mechanism. Our extensive experimental evaluations demonstrate that RAGraph significantly outperforms state-of-the-art graph learning methods in multiple tasks such as node classification, link prediction, and graph classification across both dynamic and static datasets. Furthermore, extensive testing confirms that RAGraph consistently maintains high performance without the need for task-specific fine-tuning, highlighting its adaptability, robustness, and broad applicability.

Parenting: Optimizing Knowledge Selection of Retrieval-Augmented Language Models with Parameter Decoupling and Tailored Tuning

Retrieval-Augmented Generation (RAG) offers an effective solution to the issues faced by Large Language Models (LLMs) in hallucination generation and knowledge obsolescence by incorporating externally retrieved knowledge. However, due to potential conflicts between internal and external knowledge, as well as retrieval noise, LLMs often struggle to effectively integrate external evidence, leading to a decline in performance. Although existing methods attempt to tackle these challenges, they often struggle to strike a balance between model adherence and robustness, resulting in significant learning variance. Inspired by human cognitive processes, we propose Parenting, a novel framework that decouples adherence and robustness within the parameter space of LLMs. Specifically, Parenting utilizes a key parameter mining method based on forward activation gain to identify and isolate the crucial parameter units that are strongly linked to adherence and robustness. Then, Parenting employs a type-guided tailored tuning strategy, applying specific and appropriate fine-tuning methods to parameter units representing different capabilities, aiming to achieve a balanced enhancement of adherence and robustness. Extensive experiments on various datasets and models validate the effectiveness and generalizability of our methods.

3DS: Decomposed Difficulty Data Selection's Case Study on LLM Medical Domain Adaptation

Large Language Models(LLMs) excel in general tasks but struggle in specialized domains like healthcare due to limited domain-specific knowledge.Supervised Fine-Tuning(SFT) data construction for domain adaptation often relies on heuristic methods, such as GPT-4 annotation or manual data selection, with a data-centric focus on presumed diverse, high-quality datasets. However, these methods overlook the model's inherent knowledge distribution, introducing noise, redundancy, and irrelevant data, leading to a mismatch between the selected data and the model's learning task, resulting in suboptimal performance. To address this, we propose a two-stage model-centric data selection framework, Decomposed Difficulty Data Selection (3DS), which aligns data with the model's knowledge distribution for optimized adaptation. In Stage1, we apply Prompt-Driven Data Selection via Explicit Alignment, where the the model filters irrelevant or redundant data based on its internal knowledge. In Stage2, we perform Decomposed Difficulty Data Selection, where data selection is guided by our defined difficulty decomposition, using three metrics: Instruction Understanding, Response Confidence, and Response Correctness. Additionally, an attention-based importance weighting mechanism captures token importance for more accurate difficulty calibration. This two-stage approach ensures the selected data is not only aligned with the model's knowledge and preferences but also appropriately challenging for the model to learn, leading to more effective and targeted domain adaptation. In the case study of the medical domain, our extensive experiments on real-world healthcare datasets demonstrate the superiority of 3DS over exisiting methods in accuracy by over 5.29%. Our dataset and code will be open-sourced at https://anonymous.4open.science/r/3DS-E67F.

IntelliCare: Improving Healthcare Analysis with Variance-Controlled Patient-Level Knowledge from Large Language Models

While pioneering deep learning methods have made great strides in analyzing electronic health record (EHR) data, they often struggle to fully capture the semantics of diverse medical codes from limited data. The integration of external knowledge from Large Language Models (LLMs) presents a promising avenue for improving healthcare predictions. However, LLM analyses may exhibit significant variance due to ambiguity problems and inconsistency issues, hindering their effective utilization. To address these challenges, we propose IntelliCare, a novel framework that leverages LLMs to provide high-quality patient-level external knowledge and enhance existing EHR models. Concretely, IntelliCare identifies patient cohorts and employs task-relevant statistical information to augment LLM understanding and generation, effectively mitigating the ambiguity problem. Additionally, it refines LLM-derived knowledge through a hybrid approach, generating multiple analyses and calibrating them using both the EHR model and perplexity measures. Experimental evaluations on three clinical prediction tasks across two large-scale EHR datasets demonstrate that IntelliCare delivers significant performance improvements to existing methods, highlighting its potential in advancing personalized healthcare predictions and decision support systems.

KnowPO: Knowledge-aware Preference Optimization for Controllable Knowledge Selection in Retrieval-Augmented Language Models

By integrating external knowledge, Retrieval-Augmented Generation (RAG) has become an effective strategy for mitigating the hallucination problems that large language models (LLMs) encounter when dealing with knowledge-intensive tasks. However, in the process of integrating external non-parametric supporting evidence with internal parametric knowledge, inevitable knowledge conflicts may arise, leading to confusion in the model's responses. To enhance the knowledge selection of LLMs in various contexts, some research has focused on refining their behavior patterns through instruction-tuning. Nonetheless, due to the absence of explicit negative signals and comparative objectives, models fine-tuned in this manner may still exhibit undesirable behaviors such as contextual ignorance and contextual overinclusion. To this end, we propose a Knowledge-aware Preference Optimization strategy, dubbed KnowPO, aimed at achieving adaptive knowledge selection based on contextual relevance in real retrieval scenarios. Concretely, we proposed a general paradigm for constructing knowledge conflict datasets, which comprehensively cover various error types and learn how to avoid these negative signals through preference optimization methods. Simultaneously, we proposed a rewriting strategy and data ratio optimization strategy to address preference imbalances. Experimental results show that KnowPO outperforms previous methods for handling knowledge conflicts by over 37\%, while also exhibiting robust generalization across various out-of-distribution datasets.

TC-RAG:Turing-Complete RAG's Case study on Medical LLM Systems

In the pursuit of enhancing domain-specific Large Language Models (LLMs), Retrieval-Augmented Generation (RAG) emerges as a promising solution to mitigate issues such as hallucinations, outdated knowledge, and limited expertise in highly specialized queries. However, existing approaches to RAG fall short by neglecting system state variables, which are crucial for ensuring adaptive control, retrieval halting, and system convergence. In this paper, we introduce the TC-RAG through rigorous proof, a novel framework that addresses these challenges by incorporating a Turing Complete System to manage state variables, thereby enabling more efficient and accurate knowledge retrieval. By leveraging a memory stack system with adaptive retrieval, reasoning, and planning capabilities, TC-RAG not only ensures the controlled halting of retrieval processes but also mitigates the accumulation of erroneous knowledge via Push and Pop actions. In the case study of the medical domain, our extensive experiments on real-world healthcare datasets demonstrate the superiority of TC-RAG over existing methods in accuracy by over 7.20\%. Our dataset and code have been available at https://https://github.com/Artessay/SAMA.git.

KaPO: Knowledge-aware Preference Optimization for Controllable Knowledge Selection in Retrieval-Augmented Language Models

By integrating external knowledge, Retrieval-Augmented Generation (RAG) has become an effective strategy for mitigating the hallucination problems that large language models (LLMs) encounter when dealing with knowledge-intensive tasks. However, in the process of integrating external non-parametric supporting evidence with internal parametric knowledge, inevitable knowledge conflicts may arise, leading to confusion in the model's responses. To enhance the knowledge selection of LLMs in various contexts, some research has focused on refining their behavior patterns through instruction-tuning. Nonetheless, due to the absence of explicit negative signals and comparative objectives, models fine-tuned in this manner may still exhibit undesirable behaviors in the intricate and realistic retrieval scenarios. To this end, we propose a Knowledge-aware Preference Optimization, dubbed KaPO, aimed at achieving controllable knowledge selection in real retrieval scenarios. Concretely, we explore and simulate error types across diverse context combinations and learn how to avoid these negative signals through preference optimization methods. Simultaneously, by adjusting the balance between response length and the proportion of preference data representing different behavior patterns, we enhance the adherence capabilities and noise robustness of LLMs in a balanced manner. Experimental results show that KaPO outperforms previous methods for handling knowledge conflicts by over 37%, while also exhibiting robust generalization across various out-of-distribution datasets.

A Noise-robust Multi-head Attention Mechanism for Formation Resistivity Prediction: Frequency Aware LSTM

The prediction of formation resistivity plays a crucial role in the evaluation of oil and gas reservoirs, identification and assessment of geothermal energy resources, groundwater detection and monitoring, and carbon capture and storage. However, traditional well logging techniques fail to measure accurate resistivity in cased boreholes, and the transient electromagnetic method for cased borehole resistivity logging encounters challenges of high-frequency disaster (the problem of inadequate learning by neural networks in high-frequency features) and noise interference, badly affecting accuracy. To address these challenges, frequency-aware framework and temporal anti-noise block are proposed to build frequency aware LSTM (FAL). The frequency-aware framework implements a dual-stream structure through wavelet transformation, allowing the neural network to simultaneously handle high-frequency and low-frequency flows of time-series data, thus avoiding high-frequency disaster. The temporal anti-noise block integrates multiple attention mechanisms and soft-threshold attention mechanisms, enabling the model to better distinguish noise from redundant features. Ablation experiments demonstrate that the frequency-aware framework and temporal anti-noise block contribute significantly to performance improvement. FAL achieves a 24.3% improvement in R2 over LSTM, reaching the highest value of 0.91 among all models. In robustness experiments, the impact of noise on FAL is approximately 1/8 of the baseline, confirming the noise resistance of FAL. The proposed FAL effectively reduces noise interference in predicting formation resistivity from cased transient electromagnetic well logging curves, better learns high-frequency features, and thereby enhances the prediction accuracy and noise resistance of the neural network model.

SMART: Towards Pre-trained Missing-Aware Model for Patient Health Status Prediction

Electronic health record (EHR) data has emerged as a valuable resource for analyzing patient health status. However, the prevalence of missing data in EHR poses significant challenges to existing methods, leading to spurious correlations and suboptimal predictions. While various imputation techniques have been developed to address this issue, they often obsess unnecessary details and may introduce additional noise when making clinical predictions. To tackle this problem, we propose SMART, a Self-Supervised Missing-Aware RepresenTation Learning approach for patient health status prediction, which encodes missing information via elaborated attentions and learns to impute missing values through a novel self-supervised pre-training approach that reconstructs missing data representations in the latent space. By adopting missing-aware attentions and focusing on learning higher-order representations, SMART promotes better generalization and robustness to missing data. We validate the effectiveness of SMART through extensive experiments on six EHR tasks, demonstrating its superiority over state-of-the-art methods.

Parameter Efficient Quasi-Orthogonal Fine-Tuning via Givens Rotation

With the increasingly powerful performances and enormous scales of Pretrained Language Models (PLMs), promoting parameter efficiency in fine-tuning has become a crucial need for effective and efficient adaptation to various downstream tasks. One representative line of fine-tuning methods is Orthogonal Fine-tuning (OFT), which rigorously preserves the angular distances within the parameter space to preserve the pretrained knowledge. Despite the empirical effectiveness, OFT still suffers low parameter efficiency at $\mathcal{O}(d^2)$ and limited capability of downstream adaptation. Inspired by Givens rotation, in this paper, we proposed quasi-Givens Orthogonal Fine-Tuning (qGOFT) to address the problems. We first use $\mathcal{O}(d)$ Givens rotations to accomplish arbitrary orthogonal transformation in $SO(d)$ with provable equivalence, reducing parameter complexity from $\mathcal{O}(d^2)$ to $\mathcal{O}(d)$. Then we introduce flexible norm and relative angular adjustments under soft orthogonality regularization to enhance the adaptation capability of downstream semantic deviations. Extensive experiments on various tasks and PLMs validate the effectiveness of our methods.