Meng Jiang

CL
h-index71
140papers
14,304citations
Novelty48%
AI Score63

140 Papers

CLSep 21, 2022Code
Generate rather than Retrieve: Large Language Models are Strong Context Generators

Wenhao Yu, Dan Iter, Shuohang Wang et al. · stanford

Knowledge-intensive tasks, such as open-domain question answering (QA), require access to a large amount of world or domain knowledge. A common approach for knowledge-intensive tasks is to employ a retrieve-then-read pipeline that first retrieves a handful of relevant contextual documents from an external corpus such as Wikipedia and then predicts an answer conditioned on the retrieved documents. In this paper, we present a novel perspective for solving knowledge-intensive tasks by replacing document retrievers with large language model generators. We call our method generate-then-read (GenRead), which first prompts a large language model to generate contextutal documents based on a given question, and then reads the generated documents to produce the final answer. Furthermore, we propose a novel clustering-based prompting method that selects distinct prompts, resulting in the generated documents that cover different perspectives, leading to better recall over acceptable answers. We conduct extensive experiments on three different knowledge-intensive tasks, including open-domain QA, fact checking, and dialogue system. Notably, GenRead achieves 71.6 and 54.4 exact match scores on TriviaQA and WebQ, significantly outperforming the state-of-the-art retrieve-then-read pipeline DPR-FiD by +4.0 and +3.9, without retrieving any documents from any external knowledge source. Lastly, we demonstrate the model performance can be further improved by combining retrieval and generation. Our code and generated documents can be found at https://github.com/wyu97/GenRead.

CLJul 12, 2024Code
Benchmarking Language Model Creativity: A Case Study on Code Generation

Yining Lu, Dixuan Wang, Tianjian Li et al.

As LLMs become increasingly prevalent, it is interesting to consider how ``creative'' these models can be. From cognitive science, creativity consists of at least two key characteristics: \emph{convergent} thinking (purposefulness to achieve a given goal) and \emph{divergent} thinking (adaptability to explore new environments or constraints) \citep{runco2003critical}. In this work, we introduce a framework for quantifying LLM creativity that incorporates the two design ingredients: (1) We introduce DENIAL PROMPTING which pushes LLMs to develop more creative solutions to a given problem by incrementally imposing new constraints on the previous solution, compelling LLMs to adopt new strategies. (2) We define NEOGAUGE, a metric that quantifies both convergent and divergent thinking in the generated creative responses by LLMs. We test the proposed framework on Codeforces problems, which serve as both a natural dataset for coding tasks and a collection of prior human solutions. We quantify NEOGAUGE for various proprietary and open-source models and find that even the most creative model, GPT-4, still falls short of demonstrating human-like creativity. We also experiment with advanced reasoning strategies (MCTS, self-correction, etc.) and observe no significant improvement in creativity. As a by-product of our analysis, we release NEOCODER dataset for reproducing our results on future models.

CLOct 23, 2022
Retrieval Augmentation for Commonsense Reasoning: A Unified Approach

Wenhao Yu, Chenguang Zhu, Zhihan Zhang et al. · microsoft-research

A common thread of retrieval-augmented methods in the existing literature focuses on retrieving encyclopedic knowledge, such as Wikipedia, which facilitates well-defined entity and relation spaces that can be modeled. However, applying such methods to commonsense reasoning tasks faces two unique challenges, i.e., the lack of a general large-scale corpus for retrieval and a corresponding effective commonsense retriever. In this paper, we systematically investigate how to leverage commonsense knowledge retrieval to improve commonsense reasoning tasks. We proposed a unified framework of retrieval-augmented commonsense reasoning (called RACo), including a newly constructed commonsense corpus with over 20 million documents and novel strategies for training a commonsense retriever. We conducted experiments on four different commonsense reasoning tasks. Extensive evaluation results showed that our proposed RACo can significantly outperform other knowledge-enhanced method counterparts, achieving new SoTA performance on the CommonGen and CREAK leaderboards.

CLNov 15, 2023Code
PLUG: Leveraging Pivot Language in Cross-Lingual Instruction Tuning

Zhihan Zhang, Dong-Ho Lee, Yuwei Fang et al.

Instruction tuning has remarkably advanced large language models (LLMs) in understanding and responding to diverse human instructions. Despite the success in high-resource languages, its application in lower-resource ones faces challenges due to the imbalanced foundational abilities of LLMs across different languages, stemming from the uneven language distribution in their pre-training data. To tackle this issue, we propose pivot language guided generation (PLUG), an approach that utilizes a high-resource language, primarily English, as the pivot to enhance instruction tuning in lower-resource languages. It trains the model to first process instructions in the pivot language, and then produce responses in the target language. To evaluate our approach, we introduce a benchmark, X-AlpacaEval, of instructions in 4 languages (Chinese, Korean, Italian, and Spanish), each annotated by professional translators. Our approach demonstrates a significant improvement in the instruction-following abilities of LLMs by 29% on average, compared to directly responding in the target language alone. Further experiments validate the versatility of our approach by employing alternative pivot languages beyond English to assist languages where LLMs exhibit lower proficiency. Our code and data are available at https://github.com/ytyz1307zzh/PLUG.

LGJul 30, 2024Code
Machine Unlearning in Generative AI: A Survey

Zheyuan Liu, Guangyao Dou, Zhaoxuan Tan et al.

Generative AI technologies have been deployed in many places, such as (multimodal) large language models and vision generative models. Their remarkable performance should be attributed to massive training data and emergent reasoning abilities. However, the models would memorize and generate sensitive, biased, or dangerous information originated from the training data especially those from web crawl. New machine unlearning (MU) techniques are being developed to reduce or eliminate undesirable knowledge and its effects from the models, because those that were designed for traditional classification tasks could not be applied for Generative AI. We offer a comprehensive survey on many things about MU in Generative AI, such as a new problem formulation, evaluation methods, and a structured discussion on the advantages and limitations of different kinds of MU techniques. It also presents several critical challenges and promising directions in MU research. A curated list of readings can be found: https://github.com/franciscoliu/GenAI-MU-Reading.

CLOct 19, 2023
Auto-Instruct: Automatic Instruction Generation and Ranking for Black-Box Language Models

Zhihan Zhang, Shuohang Wang, Wenhao Yu et al. · stanford

Large language models (LLMs) can perform a wide range of tasks by following natural language instructions, without the necessity of task-specific fine-tuning. Unfortunately, the performance of LLMs is greatly influenced by the quality of these instructions, and manually writing effective instructions for each task is a laborious and subjective process. In this paper, we introduce Auto-Instruct, a novel method to automatically improve the quality of instructions provided to LLMs. Our method leverages the inherent generative ability of LLMs to produce diverse candidate instructions for a given task, and then ranks them using a scoring model trained on a variety of 575 existing NLP tasks. In experiments on 118 out-of-domain tasks, Auto-Instruct surpasses both human-written instructions and existing baselines of LLM-generated instructions. Furthermore, our method exhibits notable generalizability even with other LLMs that are not incorporated into its training process.

CLAug 17, 2024Code
CodeTaxo: Enhancing Taxonomy Expansion with Limited Examples via Code Language Prompts

Qingkai Zeng, Yuyang Bai, Zhaoxuan Tan et al.

Taxonomies play a crucial role in various applications by providing a structural representation of knowledge. The task of taxonomy expansion involves integrating emerging concepts into existing taxonomies by identifying appropriate parent concepts for these new query concepts. Previous approaches typically relied on self-supervised methods that generate annotation data from existing taxonomies. However, these methods are less effective when the existing taxonomy is small (fewer than 100 entities). In this work, we introduce CodeTaxo, a novel approach that leverages large language models through code language prompts to capture the taxonomic structure. Extensive experiments on five real-world benchmarks from different domains demonstrate that CodeTaxo consistently achieves superior performance across all evaluation metrics, significantly outperforming previous state-of-the-art methods. The code and data are available at https://github.com/QingkaiZeng/CodeTaxo-Pub.

LGJun 6, 2022
Graph Rationalization with Environment-based Augmentations

Gang Liu, Tong Zhao, Jiaxin Xu et al.

Rationale is defined as a subset of input features that best explains or supports the prediction by machine learning models. Rationale identification has improved the generalizability and interpretability of neural networks on vision and language data. In graph applications such as molecule and polymer property prediction, identifying representative subgraph structures named as graph rationales plays an essential role in the performance of graph neural networks. Existing graph pooling and/or distribution intervention methods suffer from lack of examples to learn to identify optimal graph rationales. In this work, we introduce a new augmentation operation called environment replacement that automatically creates virtual data examples to improve rationale identification. We propose an efficient framework that performs rationale-environment separation and representation learning on the real and augmented examples in latent spaces to avoid the high complexity of explicit graph decoding and encoding. Comparing against recent techniques, experiments on seven molecular and four polymer real datasets demonstrate the effectiveness and efficiency of the proposed augmentation-based graph rationalization framework.

CLMay 29
KnowledgeGain: Evaluating and Optimizing Science News Generation for Reader Learning

Dominik Soós, Meng Jiang, Jian Wu

Science news is an important medium to communicate discoveries between the research communities and the public. Yet, most metrics for generated or summarized text evaluate semantic similarity and factual consistency, but do not measure how much knowledge readers learn from the news. We introduce KnowledgeGain, a metric that evaluates the quality of science news by measuring how much knowledge readers gained after reading it. To evaluate the metric, we first performed a controlled human study and showed that the metric successfully captures the differential knowledge gained by human readers reading different types of science media. The data allowed us to calibrate a prompt-only LLM reader simulator. We use it to rank and filter candidate articles before human evaluation. A second human study shows that articles selected with this simulator improve post-reading accuracy and normalized KnowledgeGain over a strong generation baseline. Our work is a step toward generating science news that better meets the knowledge and comprehension goals of Bloom's Taxonomy.

CLFeb 12Code
ADRD-Bench: A Preliminary LLM Benchmark for Alzheimer's Disease and Related Dementias

Guangxin Zhao, Jiahao Zheng, Malaz Boustani et al.

Large language models (LLMs) have shown great potential for healthcare applications. However, existing evaluation benchmarks provide minimal coverage of Alzheimer's Disease and Related Dementias (ADRD). To address this gap, we introduce ADRD-Bench, the first ADRD-specific benchmark dataset designed for rigorous evaluation of LLMs. ADRD-Bench has two components: 1) ADRD Unified QA, a synthesis of 1,352 questions consolidated from seven established medical benchmarks, providing a unified assessment of clinical knowledge; and 2) ADRD Caregiving QA, a novel set of 149 questions derived from the Aging Brain Care (ABC) program, a widely used, evidence-based brain health management program. Guided by a program with national expertise in comprehensive ADRD care, this new set was designed to mitigate the lack of practical caregiving context in existing benchmarks. We evaluated 33 state-of-the-art LLMs on the proposed ADRD-Bench. Results showed that the accuracy of open-weight general models ranged from 0.63 to 0.93 (mean: 0.78; std: 0.09). The accuracy of open-weight medical models ranged from 0.48 to 0.93 (mean: 0.82; std: 0.13). The accuracy of closed-source general models ranged from 0.83 to 0.91 (mean: 0.89; std: 0.03). While top-tier models achieved high accuracies (>0.9), case studies revealed that inconsistent reasoning quality and stability limit their reliability, highlighting a critical need for domain-specific improvement to enhance LLMs' knowledge and reasoning grounded in daily caregiving data. The entire dataset is available at https://github.com/IIRL-ND/ADRD-Bench.

CLMar 14, 2022
Diversifying Content Generation for Commonsense Reasoning with Mixture of Knowledge Graph Experts

Wenhao Yu, Chenguang Zhu, Lianhui Qin et al.

Generative commonsense reasoning (GCR) in natural language is to reason about the commonsense while generating coherent text. Recent years have seen a surge of interest in improving the generation quality of commonsense reasoning tasks. Nevertheless, these approaches have seldom investigated diversity in the GCR tasks, which aims to generate alternative explanations for a real-world situation or predict all possible outcomes. Diversifying GCR is challenging as it expects to generate multiple outputs that are not only semantically different but also grounded in commonsense knowledge. In this paper, we propose MoKGE, a novel method that diversifies the generative reasoning by a mixture of expert (MoE) strategy on commonsense knowledge graphs (KG). A set of knowledge experts seek diverse reasoning on KG to encourage various generation outputs. Empirical experiments demonstrated that MoKGE can significantly improve the diversity while achieving on par performance on accuracy on two GCR benchmarks, based on both automatic and human evaluations.

HCApr 23Code
Crepe: A Mobile Screen Data Collector Using Graph Query

Yuwen Lu, Meng Chen, Qi Zhao et al.

Collecting mobile datasets remains challenging for academic researchers due to limited data access and technical barriers. Commercial organizations often possess exclusive access to mobile data, leading to a "data monopoly" that restricts the independence of academic research. Existing open-source mobile data collection frameworks primarily focus on mobile sensing data rather than screen content, which is crucial for various research studies. We present Crepe, a no-code Android app that enables researchers to collect information displayed on screen through simple demonstrations of target data. Crepe utilizes a novel Graph Query technique which augments the structures of mobile UI screens to support flexible identification, location, and collection of specific data pieces. The tool emphasizes participants' privacy and agency by providing full transparency over collected data and allowing easy opt-out. We designed and built Crepe for research purposes only and in scenarios where researchers obtain explicit consent from participants. Code for Crepe will be open-sourced to support future academic research data collection.

CLApr 7, 2022
A Survey of Multi-task Learning in Natural Language Processing: Regarding Task Relatedness and Training Methods

Zhihan Zhang, Wenhao Yu, Mengxia Yu et al.

Multi-task learning (MTL) has become increasingly popular in natural language processing (NLP) because it improves the performance of related tasks by exploiting their commonalities and differences. Nevertheless, it is still not understood very well how multi-task learning can be implemented based on the relatedness of training tasks. In this survey, we review recent advances of multi-task learning methods in NLP, with the aim of summarizing them into two general multi-task training methods based on their task relatedness: (i) joint training and (ii) multi-step training. We present examples in various NLP downstream applications, summarize the task relationships and discuss future directions of this promising topic.

LGMar 17, 2023
Data-Centric Learning from Unlabeled Graphs with Diffusion Model

Gang Liu, Eric Inae, Tong Zhao et al.

Graph property prediction tasks are important and numerous. While each task offers a small size of labeled examples, unlabeled graphs have been collected from various sources and at a large scale. A conventional approach is training a model with the unlabeled graphs on self-supervised tasks and then fine-tuning the model on the prediction tasks. However, the self-supervised task knowledge could not be aligned or sometimes conflicted with what the predictions needed. In this paper, we propose to extract the knowledge underlying the large set of unlabeled graphs as a specific set of useful data points to augment each property prediction model. We use a diffusion model to fully utilize the unlabeled graphs and design two new objectives to guide the model's denoising process with each task's labeled data to generate task-specific graph examples and their labels. Experiments demonstrate that our data-centric approach performs significantly better than fifteen existing various methods on fifteen tasks. The performance improvement brought by unlabeled data is visible as the generated labeled examples unlike the self-supervised learning.

HCApr 29, 2022
A Bottom-Up End-User Intelligent Assistant Approach to Empower Gig Workers against AI Inequality

Toby Jia-Jun Li, Yuwen Lu, Jaylexia Clark et al.

The growing inequality in gig work between workers and platforms has become a critical social issue as gig work plays an increasingly prominent role in the future of work. The AI inequality is caused by (1) the technology divide in who has access to AI technologies in gig work; and (2) the data divide in who owns the data in gig work leads to unfair working conditions, growing pay gap, neglect of workers' diverse preferences, and workers' lack of trust in the platforms. In this position paper, we argue that a bottom-up approach that empowers individual workers to access AI-enabled work planning support and share data among a group of workers through a network of end-user-programmable intelligent assistants is a practical way to bridge AI inequality in gig work under the current paradigm of privately owned platforms. This position paper articulates a set of research challenges, potential approaches, and community engagement opportunities, seeking to start a dialogue on this important research topic in the interdisciplinary CHIWORK community.

LGSep 8, 2023
Motif-aware Attribute Masking for Molecular Graph Pre-training

Eric Inae, Gang Liu, Meng Jiang

Attribute reconstruction is used to predict node or edge features in the pre-training of graph neural networks. Given a large number of molecules, they learn to capture structural knowledge, which is transferable for various downstream property prediction tasks and vital in chemistry, biomedicine, and material science. Previous strategies that randomly select nodes to do attribute masking leverage the information of local neighbors However, the over-reliance of these neighbors inhibits the model's ability to learn from higher-level substructures. For example, the model would learn little from predicting three carbon atoms in a benzene ring based on the other three but could learn more from the inter-connections between the functional groups, or called chemical motifs. In this work, we propose and investigate motif-aware attribute masking strategies to capture inter-motif structures by leveraging the information of atoms in neighboring motifs. Once each graph is decomposed into disjoint motifs, the features for every node within a sample motif are masked. The graph decoder then predicts the masked features of each node within the motif for reconstruction. We evaluate our approach on eight molecular property prediction datasets and demonstrate its advantages.

AIJun 21, 2022
Automatic Controllable Product Copywriting for E-Commerce

Xiaojie Guo, Qingkai Zeng, Meng Jiang et al.

Automatic product description generation for e-commerce has witnessed significant advancement in the past decade. Product copywriting aims to attract users' interest and improve user experience by highlighting product characteristics with textual descriptions. As the services provided by e-commerce platforms become diverse, it is necessary to adapt the patterns of automatically-generated descriptions dynamically. In this paper, we report our experience in deploying an E-commerce Prefix-based Controllable Copywriting Generation (EPCCG) system into the JD.com e-commerce product recommendation platform. The development of the system contains two main components: 1) copywriting aspect extraction; 2) weakly supervised aspect labeling; 3) text generation with a prefix-based language model; 4) copywriting quality control. We conduct experiments to validate the effectiveness of the proposed EPCCG. In addition, we introduce the deployed architecture which cooperates with the EPCCG into the real-time JD.com e-commerce recommendation platform and the significant payoff since deployment.

CLJan 21Code
Language-Coupled Reinforcement Learning for Multilingual Retrieval-Augmented Generation

Rui Qi, Fengran Mo, Yufeng Chen et al.

Multilingual retrieval-augmented generation (MRAG) requires models to effectively acquire and integrate beneficial external knowledge from multilingual collections. However, most existing studies employ a unitive process where queries of equivalent semantics across different languages are processed through a single-turn retrieval and subsequent optimization. Such a ``one-size-fits-all'' strategy is often suboptimal in multilingual settings, as the models occur to knowledge bias and conflict during the interaction with the search engine. To alleviate the issues, we propose LcRL, a multilingual search-augmented reinforcement learning framework that integrates a language-coupled Group Relative Policy Optimization into the policy and reward models. We adopt the language-coupled group sampling in the rollout module to reduce knowledge bias, and regularize an auxiliary anti-consistency penalty in the reward models to mitigate the knowledge conflict. Experimental results demonstrate that LcRL not only achieves competitive performance but is also appropriate for various practical scenarios such as constrained training data and retrieval over collections encompassing a large number of languages. Our code is available at https://github.com/Cherry-qwq/LcRL-Open.

CLOct 7, 2022
A Unified Encoder-Decoder Framework with Entity Memory

Zhihan Zhang, Wenhao Yu, Chenguang Zhu et al.

Entities, as important carriers of real-world knowledge, play a key role in many NLP tasks. We focus on incorporating entity knowledge into an encoder-decoder framework for informative text generation. Existing approaches tried to index, retrieve, and read external documents as evidence, but they suffered from a large computational overhead. In this work, we propose an encoder-decoder framework with an entity memory, namely EDMem. The entity knowledge is stored in the memory as latent representations, and the memory is pre-trained on Wikipedia along with encoder-decoder parameters. To precisely generate entity names, we design three decoding methods to constrain entity generation by linking entities in the memory. EDMem is a unified framework that can be used on various entity-intensive question answering and generation tasks. Extensive experimental results show that EDMem outperforms both memory-based auto-encoder models and non-memory encoder-decoder models.

LGDec 9, 2025Code
Open Polymer Challenge: Post-Competition Report

Gang Liu, Sobin Alosious, Subhamoy Mahajan et al.

Machine learning (ML) offers a powerful path toward discovering sustainable polymer materials, but progress has been limited by the lack of large, high-quality, and openly accessible polymer datasets. The Open Polymer Challenge (OPC) addresses this gap by releasing the first community-developed benchmark for polymer informatics, featuring a dataset with 10K polymers and 5 properties: thermal conductivity, radius of gyration, density, fractional free volume, and glass transition temperature. The challenge centers on multi-task polymer property prediction, a core step in virtual screening pipelines for materials discovery. Participants developed models under realistic constraints that include small data, label imbalance, and heterogeneous simulation sources, using techniques such as feature-based augmentation, transfer learning, self-supervised pretraining, and targeted ensemble strategies. The competition also revealed important lessons about data preparation, distribution shifts, and cross-group simulation consistency, informing best practices for future large-scale polymer datasets. The resulting models, analysis, and released data create a new foundation for molecular AI in polymer science and are expected to accelerate the development of sustainable and energy-efficient materials. Along with the competition, we release the test dataset at https://www.kaggle.com/datasets/alexliu99/neurips-open-polymer-prediction-2025-test-data. We also release the data generation pipeline at https://github.com/sobinalosious/ADEPT, which simulates more than 25 properties, including thermal conductivity, radius of gyration, and density.

CLMay 24
Re-defining Humor Data Objects for AI Humor Research

Anna Arnett, Bang Nguyen, Meng Jiang

In most existing AI humor research, humor was treated as either "present" or "not present." We explore the concept of humor as a social interaction with context and explanations. During this project, we defined a humor reasoning data object and developed a way to prompt LLMs to generate an explanation of humor effective for general population. We iterated from an earlier prompt to an improved prompt, found that the later version reduced important errors, and then scaled generation to a large number of data objects which have the potential to enable data synthesis and data augmentation for AI humor research. Our main takeaway is that better prompting of an LLM improves humor explanation quality, especially by handling missing context, multi-modality, and transcript issues more carefully. These results establish a strong foundation for future work on AI understanding of humor as social behavior.

CLNov 21, 2023
Enabling On-Device Large Language Model Personalization with Self-Supervised Data Selection and Synthesis

Ruiyang Qin, Jun Xia, Zhenge Jia et al.

After a large language model (LLM) is deployed on edge devices, it is desirable for these devices to learn from user-generated conversation data to generate user-specific and personalized responses in real-time. However, user-generated data usually contains sensitive and private information, and uploading such data to the cloud for annotation is not preferred if not prohibited. While it is possible to obtain annotation locally by directly asking users to provide preferred responses, such annotations have to be sparse to not affect user experience. In addition, the storage of edge devices is usually too limited to enable large-scale fine-tuning with full user-generated data. It remains an open question how to enable on-device LLM personalization, considering sparse annotation and limited on-device storage. In this paper, we propose a novel framework to select and store the most representative data online in a self-supervised way. Such data has a small memory footprint and allows infrequent requests of user annotations for further fine-tuning. To enhance fine-tuning quality, multiple semantically similar pairs of question texts and expected responses are generated using the LLM. Our experiments show that the proposed framework achieves the best user-specific content-generating capability (accuracy) and fine-tuning speed (performance) compared with vanilla baselines. To the best of our knowledge, this is the very first on-device LLM personalization framework.

CLJan 10, 2024Code
TrustLLM: Trustworthiness in Large Language Models

Yue Huang, Lichao Sun, Haoran Wang et al.

Large language models (LLMs), exemplified by ChatGPT, have gained considerable attention for their excellent natural language processing capabilities. Nonetheless, these LLMs present many challenges, particularly in the realm of trustworthiness. Therefore, ensuring the trustworthiness of LLMs emerges as an important topic. This paper introduces TrustLLM, a comprehensive study of trustworthiness in LLMs, including principles for different dimensions of trustworthiness, established benchmark, evaluation, and analysis of trustworthiness for mainstream LLMs, and discussion of open challenges and future directions. Specifically, we first propose a set of principles for trustworthy LLMs that span eight different dimensions. Based on these principles, we further establish a benchmark across six dimensions including truthfulness, safety, fairness, robustness, privacy, and machine ethics. We then present a study evaluating 16 mainstream LLMs in TrustLLM, consisting of over 30 datasets. Our findings firstly show that in general trustworthiness and utility (i.e., functional effectiveness) are positively related. Secondly, our observations reveal that proprietary LLMs generally outperform most open-source counterparts in terms of trustworthiness, raising concerns about the potential risks of widely accessible open-source LLMs. However, a few open-source LLMs come very close to proprietary ones. Thirdly, it is important to note that some LLMs may be overly calibrated towards exhibiting trustworthiness, to the extent that they compromise their utility by mistakenly treating benign prompts as harmful and consequently not responding. Finally, we emphasize the importance of ensuring transparency not only in the models themselves but also in the technologies that underpin trustworthiness. Knowing the specific trustworthy technologies that have been employed is crucial for analyzing their effectiveness.

CLDec 5, 2023Code
Large Language Models on Graphs: A Comprehensive Survey

Bowen Jin, Gang Liu, Chi Han et al.

Large language models (LLMs), such as GPT4 and LLaMA, are creating significant advancements in natural language processing, due to their strong text encoding/decoding ability and newly found emergent capability (e.g., reasoning). While LLMs are mainly designed to process pure texts, there are many real-world scenarios where text data is associated with rich structure information in the form of graphs (e.g., academic networks, and e-commerce networks) or scenarios where graph data is paired with rich textual information (e.g., molecules with descriptions). Besides, although LLMs have shown their pure text-based reasoning ability, it is underexplored whether such ability can be generalized to graphs (i.e., graph-based reasoning). In this paper, we provide a systematic review of scenarios and techniques related to large language models on graphs. We first summarize potential scenarios of adopting LLMs on graphs into three categories, namely pure graphs, text-attributed graphs, and text-paired graphs. We then discuss detailed techniques for utilizing LLMs on graphs, including LLM as Predictor, LLM as Encoder, and LLM as Aligner, and compare the advantages and disadvantages of different schools of models. Furthermore, we discuss the real-world applications of such methods and summarize open-source codes and benchmark datasets. Finally, we conclude with potential future research directions in this fast-growing field. The related source can be found at https://github.com/PeterGriffinJin/Awesome-Language-Model-on-Graphs.

IRJul 8, 2023
Embedding Mental Health Discourse for Community Recommendation

Hy Dang, Bang Nguyen, Noah Ziems et al.

Our paper investigates the use of discourse embedding techniques to develop a community recommendation system that focuses on mental health support groups on social media. Social media platforms provide a means for users to anonymously connect with communities that cater to their specific interests. However, with the vast number of online communities available, users may face difficulties in identifying relevant groups to address their mental health concerns. To address this challenge, we explore the integration of discourse information from various subreddit communities using embedding techniques to develop an effective recommendation system. Our approach involves the use of content-based and collaborative filtering techniques to enhance the performance of the recommendation system. Our findings indicate that the proposed approach outperforms the use of each technique separately and provides interpretability in the recommendation process.

CRNov 10, 2025Code
A Decentralized Retrieval Augmented Generation System with Source Reliabilities Secured on Blockchain

Yining Lu, Wenyi Tang, Max Johnson et al.

Existing retrieval-augmented generation (RAG) systems typically use a centralized architecture, causing a high cost of data collection, integration, and management, as well as privacy concerns. There is a great need for a decentralized RAG system that enables foundation models to utilize information directly from data owners who maintain full control over their sources. However, decentralization brings a challenge: the numerous independent data sources vary significantly in reliability, which can diminish retrieval accuracy and response quality. To address this, our decentralized RAG system has a novel reliability scoring mechanism that dynamically evaluates each source based on the quality of responses it contributes to generate and prioritizes high-quality sources during retrieval. To ensure transparency and trust, the scoring process is securely managed through blockchain-based smart contracts, creating verifiable and tamper-proof reliability records without relying on a central authority. We evaluate our decentralized system with two Llama models (3B and 8B) in two simulated environments where six data sources have different levels of reliability. Our system achieves a +10.7\% performance improvement over its centralized counterpart in the real world-like unreliable data environments. Notably, it approaches the upper-bound performance of centralized systems under ideally reliable data environments. The decentralized infrastructure enables secure and trustworthy scoring management, achieving approximately 56\% marginal cost savings through batched update operations. Our code and system are open-sourced at github.com/yining610/Reliable-dRAG.

DBDec 19, 2022
Very Large Language Model as a Unified Methodology of Text Mining

Meng Jiang

Text data mining is the process of deriving essential information from language text. Typical text mining tasks include text categorization, text clustering, topic modeling, information extraction, and text summarization. Various data sets are collected and various algorithms are designed for the different types of tasks. In this paper, I present a blue sky idea that very large language model (VLLM) will become an effective unified methodology of text mining. I discuss at least three advantages of this new methodology against conventional methods. Finally I discuss the challenges in the design and development of VLLM techniques for text mining.

CLOct 30, 2023
Explaining Tree Model Decisions in Natural Language for Network Intrusion Detection

Noah Ziems, Gang Liu, John Flanagan et al.

Network intrusion detection (NID) systems which leverage machine learning have been shown to have strong performance in practice when used to detect malicious network traffic. Decision trees in particular offer a strong balance between performance and simplicity, but require users of NID systems to have background knowledge in machine learning to interpret. In addition, they are unable to provide additional outside information as to why certain features may be important for classification. In this work, we explore the use of large language models (LLMs) to provide explanations and additional background knowledge for decision tree NID systems. Further, we introduce a new human evaluation framework for decision tree explanations, which leverages automatically generated quiz questions that measure human evaluators' understanding of decision tree inference. Finally, we show LLM generated decision tree explanations correlate highly with human ratings of readability, quality, and use of background knowledge while simultaneously providing better understanding of decision boundaries.

AIJul 28, 2024
A Generic Review of Integrating Artificial Intelligence in Cognitive Behavioral Therapy

Meng Jiang, Qing Zhao, Jianqiang Li et al.

Cognitive Behavioral Therapy (CBT) is a well-established intervention for mitigating psychological issues by modifying maladaptive cognitive and behavioral patterns. However, delivery of CBT is often constrained by resource limitations and barriers to access. Advancements in artificial intelligence (AI) have provided technical support for the digital transformation of CBT. Particularly, the emergence of pre-training models (PTMs) and large language models (LLMs) holds immense potential to support, augment, optimize and automate CBT delivery. This paper reviews the literature on integrating AI into CBT interventions. We begin with an overview of CBT. Then, we introduce the integration of AI into CBT across various stages: pre-treatment, therapeutic process, and post-treatment. Next, we summarized the datasets relevant to some CBT-related tasks. Finally, we discuss the benefits and current limitations of applying AI to CBT. We suggest key areas for future research, highlighting the need for further exploration and validation of the long-term efficacy and clinical utility of AI-enhanced CBT. The transformative potential of AI in reshaping the practice of CBT heralds a new era of more accessible, efficient, and personalized mental health interventions.

CLDec 11, 2023Code
User Modeling in the Era of Large Language Models: Current Research and Future Directions

Zhaoxuan Tan, Meng Jiang

User modeling (UM) aims to discover patterns or learn representations from user data about the characteristics of a specific user, such as profile, preference, and personality. The user models enable personalization and suspiciousness detection in many online applications such as recommendation, education, and healthcare. Two common types of user data are text and graph, as the data usually contain a large amount of user-generated content (UGC) and online interactions. The research of text and graph mining is developing rapidly, contributing many notable solutions in the past two decades. Recently, large language models (LLMs) have shown superior performance on generating, understanding, and even reasoning over text data. The approaches of user modeling have been equipped with LLMs and soon become outstanding. This article summarizes existing research about how and why LLMs are great tools of modeling and understanding UGC. Then it reviews a few categories of large language models for user modeling (LLM-UM) approaches that integrate the LLMs with text and graph-based methods in different ways. Then it introduces specific LLM-UM techniques for a variety of UM applications. Finally, it presents remaining challenges and future directions in the LLM-UM research. We maintain the reading list at: https://github.com/TamSiuhin/LLM-UM-Reading

CLApr 22, 2024Code
Describe-then-Reason: Improving Multimodal Mathematical Reasoning through Visual Comprehension Training

Mengzhao Jia, Zhihan Zhang, Wenhao Yu et al.

Open-source multimodal large language models (MLLMs) excel in various tasks involving textual and visual inputs but still struggle with complex multimodal mathematical reasoning, lagging behind proprietary models like GPT-4V(ision) and Gemini-Pro. Although fine-tuning with intermediate steps (i.e., rationales) elicits some mathematical reasoning skills, the resulting models still fall short in visual comprehension due to inadequate visual-centric supervision, which leads to inaccurate interpretation of math figures. To address this issue, we propose a two-step training pipeline VCAR, which emphasizes the Visual Comprehension training in Addition to mathematical Reasoning learning. It first improves the visual comprehension ability of MLLMs through the visual description generation task, followed by another training step on generating rationales with the assistance of descriptions. Experimental results on two popular benchmarks demonstrate that VCAR substantially outperforms baseline methods solely relying on rationale supervision, especially on problems with high visual demands.

CLOct 18, 2024Code
MultiChartQA: Benchmarking Vision-Language Models on Multi-Chart Problems

Zifeng Zhu, Mengzhao Jia, Zhihan Zhang et al.

Multimodal Large Language Models (MLLMs) have demonstrated impressive abilities across various tasks, including visual question answering and chart comprehension, yet existing benchmarks for chart-related tasks fall short in capturing the complexity of real-world multi-chart scenarios. Current benchmarks primarily focus on single-chart tasks, neglecting the multi-hop reasoning required to extract and integrate information from multiple charts, which is essential in practical applications. To fill this gap, we introduce MultiChartQA, a benchmark that evaluates MLLMs' capabilities in four key areas: direct question answering, parallel question answering, comparative reasoning, and sequential reasoning. Our evaluation of a wide range of MLLMs reveals significant performance gaps compared to humans. These results highlight the challenges in multi-chart comprehension and the potential of MultiChartQA to drive advancements in this field. Our code and data are available at https://github.com/Zivenzhu/Multi-chart-QA

LGOct 28, 2024Code
Shopping MMLU: A Massive Multi-Task Online Shopping Benchmark for Large Language Models

Yilun Jin, Zheng Li, Chenwei Zhang et al.

Online shopping is a complex multi-task, few-shot learning problem with a wide and evolving range of entities, relations, and tasks. However, existing models and benchmarks are commonly tailored to specific tasks, falling short of capturing the full complexity of online shopping. Large Language Models (LLMs), with their multi-task and few-shot learning abilities, have the potential to profoundly transform online shopping by alleviating task-specific engineering efforts and by providing users with interactive conversations. Despite the potential, LLMs face unique challenges in online shopping, such as domain-specific concepts, implicit knowledge, and heterogeneous user behaviors. Motivated by the potential and challenges, we propose Shopping MMLU, a diverse multi-task online shopping benchmark derived from real-world Amazon data. Shopping MMLU consists of 57 tasks covering 4 major shopping skills: concept understanding, knowledge reasoning, user behavior alignment, and multi-linguality, and can thus comprehensively evaluate the abilities of LLMs as general shop assistants. With Shopping MMLU, we benchmark over 20 existing LLMs and uncover valuable insights about practices and prospects of building versatile LLM-based shop assistants. Shopping MMLU can be publicly accessed at https://github.com/KL4805/ShoppingMMLU. In addition, with Shopping MMLU, we host a competition in KDD Cup 2024 with over 500 participating teams. The winning solutions and the associated workshop can be accessed at our website https://amazon-kddcup24.github.io/.

CLApr 20
Prioritizing the Best: Incentivizing Reliable Multimodal Reasoning by Rewarding Beyond Answer Correctness

Mengzhao Jia, Zhihan Zhang, Meng Jiang

Reinforcement Learning with Verifiable Rewards (RLVR) improves multimodal reasoning by rewarding verifiable final answers. Yet answer-correct trajectories may still rely on incomplete derivations, weak evidence, or statements that contradict their conclusions. This gap between answer correctness and reasoning validity, which we call reasoning-answer inconsistency, motivates trajectory supervision in multimodal RL. We compare two main approaches: reward models (RMs), and Generative Rewards (GRs). RMs are efficient and help early in training, but their gains weaken as the policy distribution shifts; GRs improve performance, but may give unstable rewards and computationally expensive. We therefore propose Groupwise Ranking Reward, which ranks verifier-passed trajectories for the same prompt in one pass and redistributes reward accordingly. Groupwise comparison better separates stronger and weaker correct trajectories with lower judge overhead than GRs. Experiments show that RLVR aggravates reasoning-answer inconsistency, while trajectory supervision alleviates it. Groupwise Ranking Reward performs best overall, improving reliability-conditioned accuracy from 47.4% to 54.7% over RLVR.

CLFeb 12, 2025Code
IHEval: Evaluating Language Models on Following the Instruction Hierarchy

Zhihan Zhang, Shiyang Li, Zixuan Zhang et al.

The instruction hierarchy, which establishes a priority order from system messages to user messages, conversation history, and tool outputs, is essential for ensuring consistent and safe behavior in language models (LMs). Despite its importance, this topic receives limited attention, and there is a lack of comprehensive benchmarks for evaluating models' ability to follow the instruction hierarchy. We bridge this gap by introducing IHEval, a novel benchmark comprising 3,538 examples across nine tasks, covering cases where instructions in different priorities either align or conflict. Our evaluation of popular LMs highlights their struggle to recognize instruction priorities. All evaluated models experience a sharp performance decline when facing conflicting instructions, compared to their original instruction-following performance. Moreover, the most competitive open-source model only achieves 48% accuracy in resolving such conflicts. Our results underscore the need for targeted optimization in the future development of LMs.

LGMay 21, 2025Code
Graph Foundation Models: A Comprehensive Survey

Zehong Wang, Zheyuan Liu, Tianyi Ma et al.

Graph-structured data pervades domains such as social networks, biological systems, knowledge graphs, and recommender systems. While foundation models have transformed natural language processing, vision, and multimodal learning through large-scale pretraining and generalization, extending these capabilities to graphs -- characterized by non-Euclidean structures and complex relational semantics -- poses unique challenges and opens new opportunities. To this end, Graph Foundation Models (GFMs) aim to bring scalable, general-purpose intelligence to structured data, enabling broad transfer across graph-centric tasks and domains. This survey provides a comprehensive overview of GFMs, unifying diverse efforts under a modular framework comprising three key components: backbone architectures, pretraining strategies, and adaptation mechanisms. We categorize GFMs by their generalization scope -- universal, task-specific, and domain-specific -- and review representative methods, key innovations, and theoretical insights within each category. Beyond methodology, we examine theoretical foundations including transferability and emergent capabilities, and highlight key challenges such as structural alignment, heterogeneity, scalability, and evaluation. Positioned at the intersection of graph learning and general-purpose AI, GFMs are poised to become foundational infrastructure for open-ended reasoning over structured data. This survey consolidates current progress and outlines future directions to guide research in this rapidly evolving field. Resources are available at https://github.com/Zehong-Wang/Awesome-Foundation-Models-on-Graphs.

CLJan 23, 2025Code
Can Large Language Models Understand Preferences in Personalized Recommendation?

Zhaoxuan Tan, Zinan Zeng, Qingkai Zeng et al.

Large Language Models (LLMs) excel in various tasks, including personalized recommendations. Existing evaluation methods often focus on rating prediction, relying on regression errors between actual and predicted ratings. However, user rating bias and item quality, two influential factors behind rating scores, can obscure personal preferences in user-item pair data. To address this, we introduce PerRecBench, disassociating the evaluation from these two factors and assessing recommendation techniques on capturing the personal preferences in a grouped ranking manner. We find that the LLM-based recommendation techniques that are generally good at rating prediction fail to identify users' favored and disfavored items when the user rating bias and item quality are eliminated by grouping users. With PerRecBench and 19 LLMs, we find that while larger models generally outperform smaller ones, they still struggle with personalized recommendation. Our findings reveal the superiority of pairwise and listwise ranking approaches over pointwise ranking, PerRecBench's low correlation with traditional regression metrics, the importance of user profiles, and the role of pretraining data distributions. We further explore three supervised fine-tuning strategies, finding that merging weights from single-format training is promising but improving LLMs' understanding of user preferences remains an open research problem. Code and data are available at https://github.com/TamSiuhin/PerRecBench

CLJun 4, 2025Code
Aligning Large Language Models with Implicit Preferences from User-Generated Content

Zhaoxuan Tan, Zheng Li, Tianyi Liu et al.

Learning from preference feedback is essential for aligning large language models (LLMs) with human values and improving the quality of generated responses. However, existing preference learning methods rely heavily on curated data from humans or advanced LLMs, which is costly and difficult to scale. In this work, we present PUGC, a novel framework that leverages implicit human Preferences in unlabeled User-Generated Content (UGC) to generate preference data. Although UGC is not explicitly created to guide LLMs in generating human-preferred responses, it often reflects valuable insights and implicit preferences from its creators that has the potential to address readers' questions. PUGC transforms UGC into user queries and generates responses from the policy model. The UGC is then leveraged as a reference text for response scoring, aligning the model with these implicit preferences. This approach improves the quality of preference data while enabling scalable, domain-specific alignment. Experimental results on Alpaca Eval 2 show that models trained with DPO and PUGC achieve a 9.37% performance improvement over traditional methods, setting a 35.93% state-of-the-art length-controlled win rate using Mistral-7B-Instruct. Further studies highlight gains in reward quality, domain-specific alignment effectiveness, robustness against UGC quality, and theory of mind capabilities. Our code and dataset are available at https://zhaoxuan.info/PUGC.github.io/

LGMay 14
Controllable Molecular Generative Foundation Models

Yihan Zhu, Yuhan Liu, Weijiang Li et al.

Despite the success of foundation models in language and vision, molecular graph generation still lacks a unified framework for heterogeneous design tasks with reliable controllability. While reinforcement learning (RL) offers a natural post-training mechanism for task-specific optimization, applying it to graph generative models is hindered by the vast atom-wise action spaces and chemically invalid intermediate states. We propose \textbf{Co}ntrollable \textbf{Mole}cular Generative Foundation Models (CoMole), built with a unified motif-aware graph diffusion pipeline. By learning a motif-aware graph space, CoMole transfers pretrained structural priors into controllable generation, where RL optimizes conditional reverse policies over chemically meaningful decisions. We theoretically characterize the bottleneck of atom-level RL and justify motif-aware policy optimization. Across three heterogeneous benchmarks spanning materials and drug discovery, CoMole ranks first in controllability on all nine targets, reduces MAE by up to 48.2% relative to the strongest baselines, and maintains validity above 0.94 without rule-based correction or post-hoc filtering. We further show that CoMole transfers controllability to unseen properties by optimizing only task embeddings with the generator frozen, achieving performance competitive with strong task-specific baselines.

GRMay 14
3DEditSafe: Defending 3D Editing Pipelines from Unsafe Generation

Nicole Meng, Zheyuan Liu, Meng Jiang et al.

Recent advances in 3D generative editing, particularly pipelines based on 3D Gaussian Splatting (3DGS), have achieved high-fidelity, multi-view-consistent scene manipulation from text prompts. However, we find that these pipelines also introduce new safety risks when unsafe prompts produce edits that are propagated and optimized across views. In this work, we study unsafe generation in 3D editing pipelines and show that such behavior can lead to coherent, undesirable Not-Safe-For-Work (NSFW) content in the final 3D representation. To address this, we propose 3DEditSafe, a safety-regularized 3D editing framework that constrains unsafe semantic propagation during optimization. 3DEditSafe combines generation-stage safety guidance with rendered-view 3D safety regularization, safe semantic projection, residue suppression, and mask-aware preservation to steer optimization away from unsafe editing directions. We evaluate our approach on EditSplat scenes using an object-compatible unsafe prompt benchmark and show that 2D safety guidance alone is not consistently sufficient to prevent unsafe 3D edits. 3DEditSafe reduces unsafe semantic alignment and view-level attack success rates, while revealing a safety-quality tradeoff in which stronger unsafe suppression can introduce artifacts or reduce unsafe-prompt fidelity. To our knowledge, this work is the first attempt to study and defend against unsafe generation in text-driven 3D editing pipelines, highlighting the need for safety mechanisms that operate directly on optimized 3D representations.

CLJun 27, 2023
Investigating Cross-Domain Behaviors of BERT in Review Understanding

Albert Lu, Meng Jiang

Review score prediction requires review text understanding, a critical real-world application of natural language processing. Due to dissimilar text domains in product reviews, a common practice is fine-tuning BERT models upon reviews of differing domains. However, there has not yet been an empirical study of cross-domain behaviors of BERT models in the various tasks of product review understanding. In this project, we investigate text classification BERT models fine-tuned on single-domain and multi-domain Amazon review data. In our findings, though single-domain models achieved marginally improved performance on their corresponding domain compared to multi-domain models, multi-domain models outperformed single-domain models when evaluated on multi-domain data, single-domain data the single-domain model was not fine-tuned on, and on average when considering all tests. Though slight increases in accuracy can be achieved through single-domain model fine-tuning, computational resources and costs can be reduced by utilizing multi-domain models that perform well across domains.

CLMay 24, 2025Code
Cross-Lingual Pitfalls: Automatic Probing Cross-Lingual Weakness of Multilingual Large Language Models

Zixiang Xu, Yanbo Wang, Yue Huang et al.

Large Language Models (LLMs) have achieved remarkable success in Natural Language Processing (NLP), yet their cross-lingual performance consistency remains a significant challenge. This paper introduces a novel methodology for efficiently identifying inherent cross-lingual weaknesses in LLMs. Our approach leverages beam search and LLM-based simulation to generate bilingual question pairs that expose performance discrepancies between English and target languages. We construct a new dataset of over 6,000 bilingual pairs across 16 languages using this methodology, demonstrating its effectiveness in revealing weaknesses even in state-of-the-art models. The extensive experiments demonstrate that our method precisely and cost-effectively pinpoints cross-lingual weaknesses, consistently revealing over 50\% accuracy drops in target languages across a wide range of models. Moreover, further experiments investigate the relationship between linguistic similarity and cross-lingual weaknesses, revealing that linguistically related languages share similar performance patterns and benefit from targeted post-training. Code is available at https://github.com/xzx34/Cross-Lingual-Pitfalls.

CLMay 11
Prompt-Activation Duality: Improving Activation Steering via Attention-Level Interventions

Diancheng Kang, Zheyuan Liu, Ningshan Ma et al.

Activation steering controls language model behavior by adding directions to internal representations at inference time, but standard residual-stream steering can fail in stateful dialogue. We identify KV-cache contamination as a key failure mode: steered token states are stored and repeatedly reused, turning a local perturbation into cumulative coherence degradation. To address this challenge, we propose Gated Cropped Attention-Delta steering (GCAD), which extracts steering signals from system-prompt contributions to self-attention and applies them with token-level gating. Across persona-steering experiments, GCAD preserves trait control while substantially improving long-horizon coherence. On the main multi-turn benchmark, GCAD improves average coherence drift from -18.6 to -1.9 and raises turn-10 trait expression from 78.0 to 93.1. These results suggest that activation steering becomes more reliable when interventions follow the prompt-mediated pathways that models already use for behavioral control.

LGOct 9, 2025Code
Graph Diffusion Transformers are In-Context Molecular Designers

Gang Liu, Jie Chen, Yihan Zhu et al.

In-context learning allows large models to adapt to new tasks from a few demonstrations, but it has shown limited success in molecular design. Existing databases such as ChEMBL contain molecular properties spanning millions of biological assays, yet labeled data for each property remain scarce. To address this limitation, we introduce demonstration-conditioned diffusion models (DemoDiff), which define task contexts using a small set of molecule-score examples instead of text descriptions. These demonstrations guide a denoising Transformer to generate molecules aligned with target properties. For scalable pretraining, we develop a new molecular tokenizer with Node Pair Encoding that represents molecules at the motif level, requiring 5.5$\times$ fewer nodes. We curate a dataset containing millions of context tasks from multiple sources covering both drugs and materials, and pretrain a 0.7-billion-parameter model on it. Across 33 design tasks in six categories, DemoDiff matches or surpasses language models 100-1000$\times$ larger and achieves an average rank of 3.63 compared to 5.25-10.20 for domain-specific approaches. These results position DemoDiff as a molecular foundation model for in-context molecular design. Our code is available at https://github.com/liugangcode/DemoDiff.

AIOct 7, 2025Code
Scientific Algorithm Discovery by Augmenting AlphaEvolve with Deep Research

Gang Liu, Yihan Zhu, Jie Chen et al.

Large language models hold promise as scientific assistants, yet existing agents either rely solely on algorithm evolution or on deep research in isolation, both of which face critical limitations. Pure algorithm evolution, as in AlphaEvolve, depends only on the internal knowledge of LLMs and quickly plateaus in complex domains, while pure deep research proposes ideas without validation, resulting in unrealistic or unimplementable solutions. We present DeepEvolve, an agent that integrates deep research with algorithm evolution, uniting external knowledge retrieval, cross-file code editing, and systematic debugging under a feedback-driven iterative loop. Each iteration not only proposes new hypotheses but also refines, implements, and tests them, avoiding both shallow improvements and unproductive over-refinements. Across nine benchmarks in chemistry, mathematics, biology, materials, and patents, DeepEvolve consistently improves the initial algorithm, producing executable new algorithms with sustained gains. By bridging the gap between unguided evolution and research without grounding, DeepEvolve provides a reliable framework for advancing scientific algorithm discovery. Our code is available at https://github.com/liugangcode/deepevolve.

BMMay 15, 2025Code
MolTextNet: A Two-Million Molecule-Text Dataset for Multimodal Molecular Learning

Yihan Zhu, Gang Liu, Eric Inae et al.

Small molecules are essential to drug discovery, and graph-language models hold promise for learning molecular properties and functions from text. However, existing molecule-text datasets are limited in scale and informativeness, restricting the training of generalizable multimodal models. We present MolTextNet, a dataset of 2.5 million high-quality molecule-text pairs designed to overcome these limitations. To construct it, we propose a synthetic text generation pipeline that integrates structural features, computed properties, bioactivity data, and synthetic complexity. Using GPT-4o-mini, we create structured descriptions for 2.5 million molecules from ChEMBL35, with text over 10 times longer than prior datasets. MolTextNet supports diverse downstream tasks, including property prediction and structure retrieval. Pretraining CLIP-style models with Graph Neural Networks and ModernBERT on MolTextNet yields improved performance, highlighting its potential for advancing foundational multimodal modeling in molecular science. Our dataset is available at https://huggingface.co/datasets/liuganghuggingface/moltextnet.

IVNov 13, 2023
Improve Myocardial Strain Estimation based on Deformable Groupwise Registration with a Locally Low-Rank Dissimilarity Metric

Haiyang Chen, Juan Gao, Zhuo Chen et al.

Background: Current mainstream cardiovascular magnetic resonance-feature tracking (CMR-FT) methods, including optical flow and pairwise registration, often suffer from the drift effect caused by accumulative tracking errors. Here, we developed a CMR-FT method based on deformable groupwise registration with a locally low-rank (LLR) dissimilarity metric to improve myocardial tracking and strain estimation accuracy. Methods: The proposed method, Groupwise-LLR, performs feature tracking by iteratively updating the entire displacement field across all cardiac phases to minimize the sum of the patchwise signal ranks of the deformed movie. The method was compared with alternative CMR-FT methods including the Farneback optical flow, a sequentially pairwise registration method, and a global low rankness-based groupwise registration method via a simulated dataset (n = 20), a public cine data set (n = 100), and an in-house tagging-MRI patient dataset (n = 16). The proposed method was also compared with two general groupwise registration methods, nD+t B-Splines and pTVreg, in simulations and in vivo tracking. Results: On the simulated dataset, Groupwise-LLR achieved the lowest point tracking errors and voxelwise/global strain errors. On the public dataset, Groupwise-LLR achieved the lowest contour tracking errors, reduced the drift effect in late-diastole, and preserved similar inter-observer reproducibility as the alternative methods. On the patient dataset, Groupwise-LLR correlated better with tagging-MRI for radial strains than the other CMR-FT methods in multiple myocardial segments and levels. Conclusions: The proposed Groupwise-LLR reduces the drift effect and provides more accurate myocardial tracking and strain estimation than the alternative methods. The method may thus facilitate a more accurate estimation of myocardial strains for clinical assessments of cardiac function.

AIJan 1
ClinicalReTrial: A Self-Evolving AI Agent for Clinical Trial Protocol Optimization

Sixue Xing, Xuanye Xia, Kerui Wu et al.

Clinical trial failure remains a central bottleneck in drug development, where minor protocol design flaws can irreversibly compromise outcomes despite promising therapeutics. Although cutting-edge AI methods achieve strong performance in predicting trial success, they are inherently reactive for merely diagnosing risk without offering actionable remedies once failure is anticipated. To fill this gap, this paper proposes ClinicalReTrial, a self-evolving AI agent framework that addresses this gap by casting clinical trial reasoning as an iterative protocol redesign problem. Our method integrates failure diagnosis, safety-aware modification, and candidate evaluation in a closed-loop, reward-driven optimization framework. Serving the outcome prediction model as a simulation environment, ClinicalReTrial enables low-cost evaluation of protocol modifications and provides dense reward signals for continuous self-improvement. To support efficient exploration, the framework maintains hierarchical memory that captures iteration-level feedback within trials and distills transferable redesign patterns across trials. Empirically, ClinicalReTrial improves 83.3% of trial protocols with a mean success probability gain of 5.7%, and retrospective case studies demonstrate strong alignment between the discovered redesign strategies and real-world clinical trial modifications.

CLFeb 6
Uncovering Cross-Objective Interference in Multi-Objective Alignment

Yining Lu, Meng Jiang

We study a persistent failure mode in multi-objective alignment for large language models (LLMs): training improves performance on only a subset of objectives while causing others to degrade. We formalize this phenomenon as cross-objective interference and conduct the first systematic study across classic scalarization algorithms, showing that interference is pervasive and exhibits strong model dependence. To explain this phenomenon, we derive a local covariance law showing that an objective improves at first order when its reward exhibits positive covariance with the scalarized score. We extend this analysis to clipped surrogate objectives used in modern alignment, demonstrating that the covariance law remains valid under mild conditions despite clipping. Building on this analysis, we propose Covariance Targeted Weight Adaptation (CTWA), a plug-and-play method that maintains positive covariance between objective rewards and the training signal to effectively mitigate cross-objective interference. Finally, we complement these local improvement conditions with a global convergence analysis under the Polyak--Łojasiewicz condition, establishing when non-convex scalarized optimization achieves global convergence and how cross-objective interference depends on specific model geometric properties.

AIFeb 11Code
ReplicatorBench: Benchmarking LLM Agents for Replicability in Social and Behavioral Sciences

Bang Nguyen, Dominik Soós, Qian Ma et al.

The literature has witnessed an emerging interest in AI agents for automated assessment of scientific papers. Existing benchmarks focus primarily on the computational aspect of this task, testing agents' ability to reproduce or replicate research outcomes when having access to the code and data. This setting, while foundational, (1) fails to capture the inconsistent availability of new data for replication as opposed to reproduction, and (2) lacks ground-truth diversity by focusing only on reproducible papers, thereby failing to evaluate an agent's ability to identify non-replicable research. Furthermore, most benchmarks only evaluate outcomes rather than the replication process. In response, we introduce ReplicatorBench, an end-to-end benchmark, including human-verified replicable and non-replicable research claims in social and behavioral sciences for evaluating AI agents in research replication across three stages: (1) extraction and retrieval of replication data; (2) design and execution of computational experiments; and (3) interpretation of results, allowing a test of AI agents' capability to mimic the activities of human replicators in real world. To set a baseline of AI agents' capability, we develop ReplicatorAgent, an agentic framework equipped with necessary tools, like web search and iterative interaction with sandboxed environments, to accomplish tasks in ReplicatorBench. We evaluate ReplicatorAgent across four underlying large language models (LLMs), as well as different design choices of programming language and levels of code access. Our findings reveal that while current LLM agents are capable of effectively designing and executing computational experiments, they struggle with retrieving resources, such as new data, necessary to replicate a claim. All code and data are publicly available at https://github.com/CenterForOpenScience/llm-benchmarking.