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Generating patient cohorts from electronic health records using two-step retrieval-augmented text-to-SQL generation

arXiv.org Artificial Intelligence

Clinical cohort definition is crucial for patient recruitment and observational studies, yet translating inclusion/exclusion criteria into SQL queries remains challenging and manual. We present an automated system utilizing large language models that combines criteria parsing, two-level retrieval augmented generation with specialized knowledge bases, medical concept standardization, and SQL generation to retrieve patient cohorts with patient funnels. The system achieves 0.75 F1-score in cohort identification on EHR data, effectively capturing complex temporal and logical relationships. These results demonstrate the feasibility of automated cohort generation for epidemiological research.


An LLM-based Delphi Study to Predict GenAI Evolution

arXiv.org Artificial Intelligence

Predicting the future trajectory of complex and rapidly evolving systems remains a significant challenge, particularly in domains where data is scarce or unreliable. This study introduces a novel approach to qualitative forecasting by leveraging Large Language Models to conduct Delphi studies. The methodology was applied to explore the future evolution of Generative Artificial Intelligence, revealing insights into key factors such as geopolitical tensions, economic disparities, regulatory frameworks, and ethical considerations. The results highlight how LLM-based Delphi studies can facilitate structured scenario analysis, capturing diverse perspectives while mitigating issues such as respondent fatigue. However, limitations emerge in terms of knowledge cutoffs, inherent biases, and sensitivity to initial conditions. While the approach provides an innovative means for structured foresight, this method could be also considered as a novel form of reasoning. further research is needed to refine its ability to manage heterogeneity, improve reliability, and integrate external data sources.


Merging Clinical Knowledge into Large Language Models for Medical Research and Applications: A Survey

arXiv.org Artificial Intelligence

Clinical knowledge is the collection of information learned from studies on the causes, prognosis, diagnosis, and treatment of diseases. This type of knowledge can improve curing performances, and promote physical health. With the emergence of large language models (LLMs), medical artificial intelligence (medical AI), which aims to apply academic medical AI systems to real-world medical scenarios, has entered a new age of development, resulting in excellent works such as DoctorGPT and Pangu-Drug from academic and industrial researches. However, the field lacks a comprehensive compendium and comparison of building medical AI systems from academia and industry. Therefore, this survey focuses on the building paradigms of medical AI systems including the use of clinical databases, datasets, training pipelines, integrating medical knowledge graphs, system applications, and evaluation systems. We hope that this survey can help relevant practical researchers understand the current performance of academic models in various fields of healthcare, as well as the potential problems and future directions for implementing these scientific achievements.


Set-Theoretic Compositionality of Sentence Embeddings

arXiv.org Artificial Intelligence

Sentence encoders play a pivotal role in various NLP tasks; hence, an accurate evaluation of their compositional properties is paramount. However, existing evaluation methods predominantly focus on goal task-specific performance. This leaves a significant gap in understanding how well sentence embeddings demonstrate fundamental compositional properties in a task-independent context. Leveraging classical set theory, we address this gap by proposing six criteria based on three core "set-like" compositions/operations: \textit{TextOverlap}, \textit{TextDifference}, and \textit{TextUnion}. We systematically evaluate $7$ classical and $9$ Large Language Model (LLM)-based sentence encoders to assess their alignment with these criteria. Our findings show that SBERT consistently demonstrates set-like compositional properties, surpassing even the latest LLMs. Additionally, we introduce a new dataset of ~$192$K samples designed to facilitate future benchmarking efforts on set-like compositionality of sentence embeddings.


Efficient Jailbreaking of Large Models by Freeze Training: Lower Layers Exhibit Greater Sensitivity to Harmful Content

arXiv.org Artificial Intelligence

With the widespread application of Large Language Models across various domains, their security issues have increasingly garnered significant attention from both academic and industrial communities. This study conducts sampling and normalization of the parameters of the LLM to generate visual representations and heatmaps of parameter distributions, revealing notable discrepancies in parameter distributions among certain layers within the hidden layers. Further analysis involves calculating statistical metrics for each layer, followed by the computation of a Comprehensive Sensitivity Score based on these metrics, which identifies the lower layers as being particularly sensitive to the generation of harmful content. Based on this finding, we employ a Freeze training strategy, selectively performing Supervised Fine-Tuning only on the lower layers. Experimental results demonstrate that this method significantly reduces training duration and GPU memory consumption while maintaining a high jailbreak success rate and a high harm score, outperforming the results achieved by applying the LoRA method for SFT across all layers. Additionally, the method has been successfully extended to other open-source large models, validating its generality and effectiveness across different model architectures. Furthermore, we compare our method with ohter jailbreak method, demonstrating the superior performance of our approach. By innovatively proposing a method to statistically analyze and compare large model parameters layer by layer, this study provides new insights into the interpretability of large models. These discoveries emphasize the necessity of continuous research and the implementation of adaptive security measures in the rapidly evolving field of LLMs to prevent potential jailbreak attack risks, thereby promoting the development of more robust and secure LLMs.


Concealed Adversarial attacks on neural networks for sequential data

arXiv.org Artificial Intelligence

The emergence of deep learning led to the broad usage of neural networks in the time series domain for various applications, including finance and medicine. While powerful, these models are prone to adversarial attacks: a benign targeted perturbation of input data leads to significant changes in a classifier's output. However, formally small attacks in the time series domain become easily detected by the human eye or a simple detector model. We develop a concealed adversarial attack for different time-series models: it provides more realistic perturbations, being hard to detect by a human or model discriminator. To achieve this goal, the proposed adversarial attack maximizes an aggregation of a classifier and a trained discriminator loss. To make the attack stronger, we also propose a training procedure for a discriminator that provides broader coverage of possible attacks. Extensive benchmarking on six UCR time series datasets across four diverse architectures - including recurrent, convolutional, state-space, and transformer-based models - demonstrates the superiority of our attack for a concealability-efficiency trade-off. Our findings highlight the growing challenge of designing robust time series models, emphasizing the need for improved defenses against realistic and effective attacks.


WebFAQ: A Multilingual Collection of Natural Q&A Datasets for Dense Retrieval

arXiv.org Artificial Intelligence

We present WebFAQ, a large-scale collection of open-domain question answering datasets derived from FAQ-style schema.org annotations. In total, the data collection consists of 96 million natural question-answer (QA) pairs across 75 languages, including 47 million (49%) non-English samples. WebFAQ further serves as the foundation for 20 monolingual retrieval benchmarks with a total size of 11.2 million QA pairs (5.9 million non-English). These datasets are carefully curated through refined filtering and near-duplicate detection, yielding high-quality resources for training and evaluating multilingual dense retrieval models. To empirically confirm WebFAQ's efficacy, we use the collected QAs to fine-tune an in-domain pretrained XLM-RoBERTa model. Through this process of dataset-specific fine-tuning, the model achieves significant retrieval performance gains, which generalize - beyond WebFAQ - to other multilingual retrieval benchmarks evaluated in zero-shot setting. Last but not least, we utilize WebFAQ to construct a set of QA-aligned bilingual corpora spanning over 1000 language pairs using state-of-the-art bitext mining and automated LLM-assessed translation evaluation. Due to our advanced, automated method of bitext dataset generation, the resulting bilingual corpora demonstrate higher translation quality compared to similar datasets. WebFAQ and all associated resources are publicly available on GitHub and HuggingFace.


Digital Player: Evaluating Large Language Models based Human-like Agent in Games

arXiv.org Artificial Intelligence

With the rapid advancement of Large Language Models (LLMs), LLM-based autonomous agents have shown the potential to function as digital employees, such as digital analysts, teachers, and programmers. In this paper, we develop an application-level testbed based on the open-source strategy game "Unciv", which has millions of active players, to enable researchers to build a "data flywheel" for studying human-like agents in the "digital players" task. This "Civilization"-like game features expansive decision-making spaces along with rich linguistic interactions such as diplomatic negotiations and acts of deception, posing significant challenges for LLM-based agents in terms of numerical reasoning and long-term planning. Another challenge for "digital players" is to generate human-like responses for social interaction, collaboration, and negotiation with human players. The open-source project can be found at https:/github.com/fuxiAIlab/CivAgent.


1-Lipschitz Network Initialization for Certifiably Robust Classification Applications: A Decay Problem

arXiv.org Machine Learning

--This paper discusses the weight parametrization of two standard 1-Lipschitz network structure methodologies, the Almost-Orthogonal-Layers (AOL) and the SDP-based Lipschitz Layers (SLL), and derives their impact on the initialization for deep 1-Lipschitz feedforward networks in addition to discussing underlying issues surrounding this initialization. These networks are mainly used in certifiably robust classification applications to combat adversarial attacks by limiting the effects of perturbations on the output classification result. An exact and an upper bound for the parameterized weight variance was calculated assuming a standard Normal distribution initialization; additionally, an upper bound was computed assuming a Generalized Normal Distribution, generalizing the proof for Uniform, Laplace, and Normal distribution weight initializations. It is demonstrated that the weight variance holds no bearing on the output variance distribution and that only the dimension of the weight matrices matters. Additionally, this paper demonstrates that the weight initialization always causes deep 1-Lipschitz networks to decay to zero.


Rare event modeling with self-regularized normalizing flows: what can we learn from a single failure?

arXiv.org Machine Learning

Increased deployment of autonomous systems in fields like transportation and robotics have seen a corresponding increase in safety-critical failures. These failures can be difficult to model and debug due to the relative lack of data: compared to tens of thousands of examples from normal operations, we may have only seconds of data leading up to the failure. This scarcity makes it challenging to train generative models of rare failure events, as existing methods risk either overfitting to noise in the limited failure dataset or underfitting due to an overly strong prior. We address this challenge with CalNF, or calibrated normalizing flows, a self-regularized framework for posterior learning from limited data. CalNF achieves state-of-the-art performance on data-limited failure modeling and inverse problems and enables a first-of-a-kind case study into the root causes of the 2022 Southwest Airlines scheduling crisis.