Exploring the Alignment Landscape: LLMs and Geometric Deep Models in Protein Representation

Latent representation alignment has become a foundational technique for constructing multimodal large language models (MLLM) by mapping embeddings from different modalities into a shared space, often aligned with the embedding space of large language models (LLMs) to enable effective cross-modal understanding. While preliminary protein-focused MLLMs have emerged, they have predominantly relied on heuristic approaches, lacking a fundamental understanding of optimal alignment practices across representations. In this study, we explore the alignment of multimodal representations between LLMs and Geometric Deep Models (GDMs) in the protein domain. We comprehensively evaluate three state-of-the-art LLMs (Gemma2-2B, LLaMa3.1-8B, and LLaMa3.1-70B) with four protein-specialized GDMs (GearNet, GVP, ScanNet, GAT). Our work examines alignment factors from both model and protein perspectives, identifying challenges in current alignment methodologies and proposing strategies to improve the alignment process. Our key findings reveal that GDMs incorporating both graph and 3D structural information align better with LLMs, larger LLMs demonstrate improved alignment capabilities, and protein rarity significantly impacts alignment performance. We also find that increasing GDM embedding dimensions, using two-layer projection heads, and fine-tuning LLMs on protein-specific data substantially enhance alignment quality. These strategies offer potential enhancements to the performance of protein-related multimodal models. Our code and data are available at https://github.com/Tizzzzy/LLM-GDM-alignment.

Comparative Analysis of Demonstration Selection Algorithms for LLM In-Context Learning

In-context learning can help Large Language Models (LLMs) to adapt new tasks without additional training. However, this performance heavily depends on the quality of the demonstrations, driving research into effective demonstration selection algorithms to optimize this process. These algorithms assist users in selecting the best $k$ input-label pairs (demonstration examples) based on a given test input, enabling LLMs to in-context learn the relationship between the provided examples and the test inputs. Despite all the proposed demonstration selection algorithms, their efficiency and effectiveness remain unclear. This lack of clarity make it difficult to apply these algorithms in real-world scenarios and poses challenges for future research aimed at developing improved methods. This paper revisits six proposed algorithms, evaluating them on five datasets from both efficiency and effectiveness perspectives. Our experiments reveal significant variations in algorithm performance across different tasks, with some methods struggling to outperform random selection in certain scenarios. We also find that increasing the number of demonstrations does not always lead to better performance, and that there are often trade-offs between accuracy and computational efficiency. Our code is available at https://github.com/Tizzzzy/Demonstration_Selection_Overview.

DemoShapley: Valuation of Demonstrations for In-Context Learning

Large language models (LLMs) leveraging in-context learning (ICL) have set new benchmarks in few-shot learning across various tasks without needing task-specific fine-tuning. However, extensive research has demonstrated that the effectiveness of ICL is significantly influenced by the selection and ordering of demonstrations. Considering the critical role of demonstration selection in ICL, we introduce DemoShapley which is inspired by the Data Shapley valuation theorem. This approach assesses the influence of individual demonstration instances, distinguishing between those that contribute positively and those that may hinder performance. Our findings reveal that DemoShapley not only enhances model performance in terms of accuracy and fairness but also generalizes queries from domains distinct from those of the in-context demonstrations, highlighting its versatility and effectiveness in optimizing ICL demonstration selection. Last but not least, DemoShapley demonstrates its ability to aid in identifying noisy data within the demonstration set.

ProxiMix: Enhancing Fairness with Proximity Samples in Subgroups

Many bias mitigation methods have been developed for addressing fairness issues in machine learning. We found that using linear mixup alone, a data augmentation technique, for bias mitigation, can still retain biases present in dataset labels. Research presented in this paper aims to address this issue by proposing a novel pre-processing strategy in which both an existing mixup method and our new bias mitigation algorithm can be utilized to improve the generation of labels of augmented samples, which are proximity aware. Specifically, we proposed ProxiMix which keeps both pairwise and proximity relationships for fairer data augmentation. We conducted thorough experiments with three datasets, three ML models, and different hyperparameters settings. Our experimental results showed the effectiveness of ProxiMix from both fairness of predictions and fairness of recourse perspectives.

Exploring Multilingual Probing in Large Language Models: A Cross-Language Analysis

Probing techniques for large language models (LLMs) have primarily focused on English, overlooking the vast majority of the world's languages. In this paper, we extend these probing methods to a multilingual context, investigating the behaviors of LLMs across diverse languages. We conduct experiments on several open-source LLM models, analyzing probing accuracy, trends across layers, and similarities between probing vectors for multiple languages. Our key findings reveal: (1) a consistent performance gap between high-resource and low-resource languages, with high-resource languages achieving significantly higher probing accuracy; (2) divergent layer-wise accuracy trends, where high-resource languages show substantial improvement in deeper layers similar to English; and (3) higher representational similarities among high-resource languages, with low-resource languages demonstrating lower similarities both among themselves and with high-resource languages. These results highlight significant disparities in LLMs' multilingual capabilities and emphasize the need for improved modeling of low-resource languages.

Data-centric NLP Backdoor Defense from the Lens of Memorization

Backdoor attack is a severe threat to the trustworthiness of DNN-based language models. In this paper, we first extend the definition of memorization of language models from sample-wise to more fine-grained sentence element-wise (e.g., word, phrase, structure, and style), and then point out that language model backdoors are a type of element-wise memorization. Through further analysis, we find that the strength of such memorization is positively correlated to the frequency of duplicated elements in the training dataset. In conclusion, duplicated sentence elements are necessary for successful backdoor attacks. Based on this, we propose a data-centric defense. We first detect trigger candidates in training data by finding memorizable elements, i.e., duplicated elements, and then confirm real triggers by testing if the candidates can activate backdoor behaviors (i.e., malicious elements). Results show that our method outperforms state-of-the-art defenses in defending against different types of NLP backdoors.

Deep Computer Vision for Solar Physics Big Data: Opportunities and Challenges

With recent missions such as advanced space-based observatories like the Solar Dynamics Observatory (SDO) and Parker Solar Probe, and ground-based telescopes like the Daniel K. Inouye Solar Telescope (DKIST), the volume, velocity, and variety of data have made solar physics enter a transformative era as solar physics big data (SPBD). With the recent advancement of deep computer vision, there are new opportunities in SPBD for tackling problems that were previously unsolvable. However, there are new challenges arising due to the inherent characteristics of SPBD and deep computer vision models. This vision paper presents an overview of the different types of SPBD, explores new opportunities in applying deep computer vision to SPBD, highlights the unique challenges, and outlines several potential future research directions.

Strategic Demonstration Selection for Improved Fairness in LLM In-Context Learning

Recent studies highlight the effectiveness of using in-context learning (ICL) to steer large language models (LLMs) in processing tabular data, a challenging task given the structured nature of such data. Despite advancements in performance, the fairness implications of these methods are less understood. This study investigates how varying demonstrations within ICL prompts influence the fairness outcomes of LLMs. Our findings reveal that deliberately including minority group samples in prompts significantly boosts fairness without sacrificing predictive accuracy. Further experiments demonstrate that the proportion of minority to majority samples in demonstrations affects the trade-off between fairness and prediction accuracy. Based on these insights, we introduce a mitigation technique that employs clustering and evolutionary strategies to curate a diverse and representative sample set from the training data. This approach aims to enhance both predictive performance and fairness in ICL applications. Experimental results validate that our proposed method dramatically improves fairness across various metrics, showing its efficacy in real-world scenarios.

LawLLM: Law Large Language Model for the US Legal System

In the rapidly evolving field of legal analytics, finding relevant cases and accurately predicting judicial outcomes are challenging because of the complexity of legal language, which often includes specialized terminology, complex syntax, and historical context. Moreover, the subtle distinctions between similar and precedent cases require a deep understanding of legal knowledge. Researchers often conflate these concepts, making it difficult to develop specialized techniques to effectively address these nuanced tasks. In this paper, we introduce the Law Large Language Model (LawLLM), a multi-task model specifically designed for the US legal domain to address these challenges. LawLLM excels at Similar Case Retrieval (SCR), Precedent Case Recommendation (PCR), and Legal Judgment Prediction (LJP). By clearly distinguishing between precedent and similar cases, we provide essential clarity, guiding future research in developing specialized strategies for these tasks. We propose customized data preprocessing techniques for each task that transform raw legal data into a trainable format. Furthermore, we also use techniques such as in-context learning (ICL) and advanced information retrieval methods in LawLLM. The evaluation results demonstrate that LawLLM consistently outperforms existing baselines in both zero-shot and few-shot scenarios, offering unparalleled multi-task capabilities and filling critical gaps in the legal domain.

When Search Engine Services meet Large Language Models: Visions and Challenges

Combining Large Language Models (LLMs) with search engine services marks a significant shift in the field of services computing, opening up new possibilities to enhance how we search for and retrieve information, understand content, and interact with internet services. This paper conducts an in-depth examination of how integrating LLMs with search engines can mutually benefit both technologies. We focus on two main areas: using search engines to improve LLMs (Search4LLM) and enhancing search engine functions using LLMs (LLM4Search). For Search4LLM, we investigate how search engines can provide diverse high-quality datasets for pre-training of LLMs, how they can use the most relevant documents to help LLMs learn to answer queries more accurately, how training LLMs with Learning-To-Rank (LTR) tasks can enhance their ability to respond with greater precision, and how incorporating recent search results can make LLM-generated content more accurate and current. In terms of LLM4Search, we examine how LLMs can be used to summarize content for better indexing by search engines, improve query outcomes through optimization, enhance the ranking of search results by analyzing document relevance, and help in annotating data for learning-to-rank tasks in various learning contexts. However, this promising integration comes with its challenges, which include addressing potential biases and ethical issues in training models, managing the computational and other costs of incorporating LLMs into search services, and continuously updating LLM training with the ever-changing web content. We discuss these challenges and chart out required research directions to address them. We also discuss broader implications for service computing, such as scalability, privacy concerns, and the need to adapt search engine architectures for these advanced models.