Foundation models, first introduced in 2021, are large-scale pre-trained models (e.g., large language models (LLMs) and vision-language models (VLMs)) that learn from extensive unlabeled datasets through unsupervised methods, enabling them to excel in diverse downstream tasks. These models, like GPT, can be adapted to various applications such as question answering and visual understanding, outperforming task-specific AI models and earning their name due to broad applicability across fields. The development of biomedical foundation models marks a significant milestone in leveraging artificial intelligence (AI) to understand complex biological phenomena and advance medical research and practice. This survey explores the potential of foundation models across diverse domains within biomedical fields, including computational biology, drug discovery and development, clinical informatics, medical imaging, and public health. The purpose of this survey is to inspire ongoing research in the application of foundation models to health science.

As scaled language models (LMs) approach human-level reasoning capabilities, self-improvement emerges as a solution to synthesizing high-quality data corpus. While previous research has identified model collapse as a risk in self-improvement, where model outputs become increasingly deterministic, we discover a more fundamental challenge: the superficial self-improved reasoners phenomenon. In particular, our analysis reveals that even when LMs show improved in-domain (ID) reasoning accuracy, they actually compromise their generalized reasoning capabilities on out-of-domain (OOD) tasks due to memorization rather than genuine. Through a systematic investigation of LM architecture, we discover that during self-improvement, LM weight updates are concentrated in less reasoning-critical layers, leading to superficial learning. To address this, we propose Iterative Model Merging (IMM), a method that strategically combines weights from original and self-improved models to preserve generalization while incorporating genuine reasoning improvements. Our approach effectively mitigates both LM collapse and superficial learning, moving towards more stable self-improving systems.

Reading assessments are essential for enhancing students' comprehension, yet many EdTech applications focus mainly on outcome-based metrics, providing limited insights into student behavior and cognition. This study investigates the use of multimodal data sources -- including eye-tracking data, learning outcomes, assessment content, and teaching standards -- to derive meaningful reading insights. We employ unsupervised learning techniques to identify distinct reading behavior patterns, and then a large language model (LLM) synthesizes the derived information into actionable reports for educators, streamlining the interpretation process. LLM experts and human educators evaluate these reports for clarity, accuracy, relevance, and pedagogical usefulness. Our findings indicate that LLMs can effectively function as educational analysts, turning diverse data into teacher-friendly insights that are well-received by educators. While promising for automating insight generation, human oversight remains crucial to ensure reliability and fairness. This research advances human-centered AI in education, connecting data-driven analytics with practical classroom applications.

Large language models (LLMs) have demonstrated the ability to generate text that realistically reflects a range of different subjective human perspectives. This paper studies how LLMs are seemingly able to reflect more liberal versus more conservative viewpoints among other political perspectives in American politics. We show that LLMs possess linear representations of political perspectives within activation space, wherein more similar perspectives are represented closer together. To do so, we probe the attention heads across the layers of three open transformerbased LLMs (Llama-2-7b-chat, Mistral-7b-instruct, Vicuna-7b). We first prompt models to generate text from the perspectives of different U.S. lawmakers. We then identify sets of attention heads whose activations linearly predict those lawmakers' DW-NOMINATE scores, a widely-used and validated measure of political ideology. We find that highly predictive heads are primarily located in the middle layers, often speculated to encode high-level concepts and tasks. Using probes only trained to predict lawmakers' ideology, we then show that the same probes can predict measures of news outlets' slant from the activations of models prompted to simulate text from those news outlets. These linear probes allow us to visualize, interpret, and monitor ideological stances implicitly adopted by an LLM as it generates open-ended responses. Finally, we demonstrate that by applying linear interventions to these attention heads, we can steer the model outputs toward a more liberal or conservative stance. Overall, our research suggests that LLMs possess a high-level linear representation of American political ideology and that by leveraging recent advances in mechanistic interpretability, we can identify, monitor, and steer the subjective perspective underlying generated text. Large language models (LLMs) have demonstrated the ability to generate text that reflects a range of different subjective perspectives (Argyle et al., 2023b; Gao et al., 2024). This paper examines whether LLMs possess general representations of political perspective in activation space, whether such representations are linear, and whether they can be used to steer model outputs. Specifically, we show that LLMs possess a linear representation of the "liberal-conservative" political axis in American politics. It is widely believed for LLMs that "important" concepts are encoded linearly as directions in activation space (Mikolov et al., 2013; Nanda et al., 2023; Elhage et al., 2022; Gurnee & Tegmark, 2024; Park et al., 2024b). Assistant: On the one hand, those who support immigration On one hand, pro - choice advoc ates argue that a woman argue that it can bring many benefits to a country. On the other ha rt ages in certain industries, such as healthcare or nd, pro - life advoc ates argue that abortion is the intent io technology.

The rapidly evolving labor market, driven by technological advancements and economic shifts, presents significant challenges for traditional job matching and consultation services. In response, we introduce an advanced support tool for career counselors and job seekers based on CareerBERT, a novel approach that leverages the power of unstructured textual data sources, such as resumes, to provide more accurate and comprehensive job recommendations. In contrast to previous approaches that primarily focus on job recommendations based on a fixed set of concrete job advertisements, our approach involves the creation of a corpus that combines data from the European Skills, Competences, and Occupations (ESCO) taxonomy and EURopean Employment Services (EURES) job advertisements, ensuring an up-to-date and well-defined representation of general job titles in the labor market. Our two-step evaluation approach, consisting of an application-grounded evaluation using EURES job advertisements and a human-grounded evaluation using real-world resumes and Human Resources (HR) expert feedback, provides a comprehensive assessment of CareerBERT's performance. Our experimental results demonstrate that CareerBERT outperforms both traditional and state-of-the-art embedding approaches while showing robust effectiveness in human expert evaluations. These results confirm the effectiveness of CareerBERT in supporting career consultants by generating relevant job recommendations based on resumes, ultimately enhancing the efficiency of job consultations and expanding the perspectives of job seekers. This research contributes to the field of NLP and job recommendation systems, offering valuable insights for both researchers and practitioners in the domain of career consulting and job matching.

Foundation models, including language models, e.g., GPT, and vision models, e.g., CLIP, have significantly advanced numerous biomedical tasks. Despite these advancements, the high inference latency and the "overthinking" issues in model inference impair the efficiency and effectiveness of foundation models, thus limiting their application in real-time clinical settings. To address these challenges, we proposed EPEE (Entropy- and Patience-based Early Exiting), a novel hybrid strategy designed to improve the inference efficiency of foundation models. The core idea was to leverage the strengths of entropy-based and patience-based early exiting methods to overcome their respective weaknesses. To evaluate EPEE, we conducted experiments on three core biomedical tasks-classification, relation extraction, and event extraction-using four foundation models (BERT, ALBERT, GPT-2, and ViT) across twelve datasets, including clinical notes and medical images. The results showed that EPEE significantly reduced inference time while maintaining or improving accuracy, demonstrating its adaptability to diverse datasets and tasks. EPEE addressed critical barriers to deploying foundation models in healthcare by balancing efficiency and effectiveness. It potentially provided a practical solution for real-time clinical decision-making with foundation models, supporting reliable and efficient workflows.

Diffusion models have shown promising generative capabilities across diverse domains, yet aligning their outputs with desired reward functions remains a challenge, particularly in cases where reward functions are non-differentiable. Some gradient-free guidance methods have been developed, but they often struggle to achieve optimal inference-time alignment. In this work, we newly frame inference-time alignment in diffusion as a search problem and propose Dynamic Search for Diffusion (DSearch), which subsamples from denoising processes and approximates intermediate node rewards. It also dynamically adjusts beam width and tree expansion to efficiently explore high-reward generations. To refine intermediate decisions, DSearch incorporates adaptive scheduling based on noise levels and a lookahead heuristic function. We validate DSearch across multiple domains, including biological sequence design, molecular optimization, and image generation, demonstrating superior reward optimization compared to existing approaches.

Existing challenges in misinformation exposure and susceptibility vary across demographic groups, as some populations are more vulnerable to misinformation than others. Large language models (LLMs) introduce new dimensions to these challenges through their ability to generate persuasive content at scale and reinforcing existing biases. This study investigates the bidirectional persuasion dynamics between LLMs and humans when exposed to misinformative content. We analyze human-to-LLM influence using human-stance datasets and assess LLM-to-human influence by generating LLM-based persuasive arguments. Additionally, we use a multi-agent LLM framework to analyze the spread of misinformation under persuasion among demographic-oriented LLM agents. Our findings show that demographic factors influence susceptibility to misinformation in LLMs, closely reflecting the demographic-based patterns seen in human susceptibility. We also find that, similar to human demographic groups, multi-agent LLMs exhibit echo chamber behavior. This research explores the interplay between humans and LLMs, highlighting demographic differences in the context of misinformation and offering insights for future interventions.

Medical imaging plays a pivotal role in modern healthcare, with computed tomography pulmonary angiography (CTPA) being a critical tool for diagnosing pulmonary embolism and other thoracic conditions. However, the complexity of interpreting CTPA scans and generating accurate radiology reports remains a significant challenge. This paper introduces Abn-BLIP (Abnormality-aligned Bootstrapping Language-Image Pretraining), an advanced diagnosis model designed to align abnormal findings to generate the accuracy and comprehensiveness of radiology reports. By leveraging learnable queries and cross-modal attention mechanisms, our model demonstrates superior performance in detecting abnormalities, reducing missed findings, and generating structured reports compared to existing methods. Our experiments show that Abn-BLIP outperforms state-of-the-art medical vision-language models and 3D report generation methods in both accuracy and clinical relevance. These results highlight the potential of integrating multimodal learning strategies for improving radiology reporting. The source code is available at https://github.com/zzs95/abn-blip.

This study examines how large language models categorize sentences from scientific papers using prompt engineering. We use two advanced web-based models, GPT-4o (by OpenAI) and DeepSeek R1, to classify sentences into predefined relationship categories. DeepSeek R1 has been tested on benchmark datasets in its technical report. However, its performance in scientific text categorization remains unexplored. To address this gap, we introduce a new evaluation method designed specifically for this task. We also compile a dataset of cleaned scientific papers from diverse domains. This dataset provides a platform for comparing the two models. Using this dataset, we analyze their effectiveness and consistency in categorization.