GenAI4ELab/papercli-papers huggingface dataset:
Language Ranker: A Lightweight Ranking framework for LLM Decoding
Authors: Chenheng Zhang; Tianqi Du; Jizhe Zhang; Mingqing Xiao; Yifei Wang; Yisen Wang; Zhouchen Lin
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Conventional research on large language models (LLMs) has primarily focused on refining output distributions, while paying less attention to the decoding process that transforms these distributions into final responses. Recent advances, such as scaling the computation of inference time with reward models, have underscored the importance of decoding, but these methods often suffer from high computational costs and limited applicability.
In this paper, we revisit LLM generation through the lens of recommender systems, conceptualizing the decoding process as analogous to the ranking stage in recommendation pipelines. From this perspective, we observe that both traditional decoding methods and reward models exhibit clear limitations such as redundancy.
Motivated by this insight, we propose Language Ranker, a novel framework that introduces a lightweight module to rerank candidate responses using features extracted by the base model. Experiments across a wide range of tasks show that Language Ranker achieves performance comparable to large-scale reward models, while requiring only <0.5M additional parameters, significantly reducing the computational overhead during both training and inference stages.  This highlights the efficiency and effectiveness of our method, showcasing its potential to fully unlock the capabilities of LLMs.
Repurposing AlphaFold3-like Protein Folding Models for Antibody Sequence and Structure Co-design
Authors: Nianzu Yang; Songlin Jiang; Jian Ma; Huaijin Wu; Shuangjia Zheng; Wengong Jin; Junchi Yan
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Diffusion models hold great potential for accelerating antibody design, but their performance is so far limited by the number of antibody-antigen complexes used for model training. Meanwhile, AlphaFold3-like protein folding models, pre-trained on a large corpus of crystal structures, have acquired a broad understanding of biomolecular interaction. Based on this insight, we develop a new antigen-conditioned antibody design model by adapting the diffusion module of AlphaFold3-like models for sequence-structure co-diffusion. Specifically, we extend their structure diffusion module with a sequence diffusion head and fine-tune the entire protein folding model for antibody sequence-structure co-design. Our benchmark results show that sequence-structure co-diffusion models not only surpass state-of-the-art antibody design methods in performance but also maintain structure prediction accuracy comparable to the original folding model. Notably, in the antibody co-design task, our method achieves a CDR-H3 recovery rate of 65% for typical antibodies, outperforming the baselines by 87%, and attains a remarkable 63% recovery rate for nanobodies.
Learning Temporal 3D Semantic Scene Completion via Optical Flow Guidance
Authors: Meng Wang; Fan Wu; Ruihui Li; Qin Yunchuan; Zhuo Tang; Kenli Li
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: 3D Semantic Scene Completion (SSC) provides comprehensive scene geometry and semantics for autonomous driving perception, which is crucial for enabling accurate and reliable decision-making. However, existing SSC methods are limited to capturing sparse information from the current frame or naively stacking multi-frame temporal features, thereby failing to acquire effective scene context. These approaches ignore critical motion dynamics and struggle to achieve temporal consistency. To address the above challenges, we propose a novel temporal SSC method FlowScene: Learning Temporal 3D Semantic Scene Completion via Optical Flow Guidance. By leveraging optical flow, FlowScene can integrate motion, different viewpoints, occlusions, and other contextual cues, thereby significantly improving the accuracy of 3D scene completion. Specifically, our framework introduces two key components: (1) a Flow-Guided Temporal Aggregation module that aligns and aggregates temporal features using optical flow, capturing motion-aware context and deformable structures; and (2) an Occlusion-Guided Voxel Refinement module that injects occlusion masks and temporally aggregated features into 3D voxel space, adaptively refining voxel representations for explicit geometric modeling.
Experimental results demonstrate that FlowScene achieves state-of-the-art performance, with mIoU of 17.70 and 20.81 on the SemanticKITTI and SSCBench-KITTI-360 benchmarks.
Optimal Best Arm Identification under Differential Privacy
Authors: Marc Jourdan; Achraf Azize
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Best Arm Identification (BAI) algorithms are deployed in data-sensitive applications, such as adaptive clinical trials or user studies. Driven by the privacy concerns of these applications, we study the problem of fixed-confidence BAI under global Differential Privacy (DP) for Bernoulli distributions. While numerous asymptotically optimal BAI algorithms exist in the non-private setting, a significant gap remains between the best lower and upper bounds in the global DP setting. This work reduces this gap to a small multiplicative constant, for any privacy budget $\epsilon$. First, we provide a tighter lower bound on the expected sample complexity of any $\delta$-correct and $\epsilon$-global DP strategy. Our lower bound replaces the Kullback–Leibler (KL) divergence in the transportation cost used by the non-private characteristic time with a new information-theoretic quantity that optimally trades off between the KL divergence and the Total Variation distance scaled by $\epsilon$. Second, we introduce a stopping rule based on these transportation costs and a private estimator of the means computed using an arm-dependent geometric batching. En route to proving the correctness of our stopping rule, we derive concentration results of independent interest for the Laplace distribution and for the sum of Bernoulli and Laplace distributions. Third, we propose a Top Two sampling rule based on these transportation costs. For any budget $\epsilon$, we show an asymptotic upper bound on its expected sample complexity that matches our lower bound to a multiplicative constant smaller than $8$. Our algorithm outperforms existing $\delta$-correct and $\epsilon$-global DP BAI algorithms for different values of $\epsilon$.
Individually Fair Diversity Maximization
Authors: Ruien Li; Yanhao Wang
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: We consider the problem of diversity maximization from the perspective of individual fairness: given a set $P$ of $n$ points in a metric space, we aim to extract a subset $S$ of size $k$ from $P$ so that (1) the diversity of $S$ is maximized and (2) $S$ is \emph{individually fair} in the sense that every point in $P$ has at least one of its $\frac{n}{k}$-nearest neighbors as its ``representative'' in $S$. We propose $\left(O(1), 3\right)$-bicriteria approximation algorithms for the individually fair variants of the three most common diversity maximization problems, namely, max-min diversification, max-sum diversification, and sum-min diversification. Specifically, the proposed algorithms provide a set of points where every point in the dataset finds a point within a distance at most $3$ times its distance to its $\frac{n}{k}$-nearest neighbor while achieving a diversity value at most $O(1)$ times lower than the optimal solution. Numerical experiments on real-world and synthetic datasets demonstrate that the proposed algorithms generate solutions that are individually fairer than those produced by unconstrained algorithms and incur only modest losses in diversity.
Leveraging robust optimization for llm alignment under distribution shifts
Authors: Mingye Zhu; Yi Liu; Zheren Fu; Yongdong Zhang; Zhendong Mao
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Preference alignment methods are increasingly critical for steering large language models (LLMs) to generate outputs consistent with human values. While recent approaches often rely on synthetic data generated by LLMs for scalability and cost-efficiency reasons, this reliance can introduce distributional shifts that undermine the nuanced representation of human preferences needed for desirable outputs. In this paper, we propose a novel distribution-aware optimization framework that improves preference alignment despite such shifts. Our approach first leverages well-learned classifiers to assign a calibration value to each training sample, quantifying its alignment with the target human-preferred distribution. These values are then incorporated into a robust optimization objective that minimizes the worst-case loss over regions of the data space most relevant to human preferences. By explicitly focusing optimization on the target distribution, our approach mitigates the impact of distributional mismatch and improves the generation of responses that better reflect intended values.
ShapeLLM-Omni: A Native Multimodal LLM for 3D Generation and Understanding
Authors: Junliang Ye; Zhengyi Wang; Ruowen Zhao; Shenghao Xie; Jun Zhu
Venue: NeurIPS 2025 (NeurIPS 2025 spotlight)

Abstract: Recently, the powerful text-to-image capabilities of GPT-4o have led to growing appreciation for native multimodal large language models. However, its multimodal capabilities remain confined to images and text. Yet beyond images, the ability to understand and generate 3D content is equally crucial. To address this gap, we propose ShapeLLM-Omni—a native 3D large language model capable of understanding and generating 3D assets and text in any sequence. First, we train a 3D vector-quantized variational autoencoder (VQVAE), which maps 3D objects into a discrete latent space to achieve efficient and accurate shape representation and reconstruction. Building upon the 3D-aware discrete tokens, we innovatively construct a large-scale continuous training dataset named 3D-Alpaca, encompassing generation, comprehension, and editing, thus providing rich resources for future research and training. Finally, we perform instruction-based fine-tuning of the Qwen-2.5-vl-7B-Instruct model on the 3D-Alpaca dataset, equipping it with native 3D understanding and generation capabilities. Our work represents an effective step toward extending multimodal large language models with fundamental 3D intelligence, paving the way for future advances in 3D-native AI.
Tool-Augmented Spatiotemporal Reasoning for Streamlining Video Question Answering Task
Authors: Sunqi Fan; Jiashuo Cui; Meng-Hao Guo; Shuojin Yang
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Video Question Answering (VideoQA) task serves as a critical playground for evaluating whether foundation models can effectively perceive, understand, and reason about dynamic real-world scenarios. However, existing Multimodal Large Language Models (MLLMs) struggle with simultaneously ensuring the ability to model spatial relationships between video frames and to understand the causal dynamics of temporal evolution on complex and reasoning-intensive VideoQA. In this work, we equip MLLM with a comprehensive and extensible Video Toolkit, to enhance MLLM’s spatiotemporal reasoning capabilities as well as guarantee the harmony between the quantity and diversity of tools. To better control the tool invocation sequence and avoid toolchain shortcut issues, we propose a Spatiotemporal Reasoning Framework (STAR) that strategically schedules temporal and spatial tools, thereby progressively localizing the key area in the video. Our STAR framework enhances GPT-4o using lightweight tools, achieving an 8.2% gain on VideoMME and 4.6% on LongVideoBench. We believe that our proposed Video Toolkit and STAR framework make an important step towards building autonomous and intelligent video analysis assistants. The code is publicly available at https://github.com/fansunqi/VideoTool.
Learning Simple Interpolants for Linear Integer Arithmetic
Authors: Minchao Wu; Naoki Kobayashi
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Craig interpolation plays a central role in formal verification tasks such as model checking, invariant generation, and abstraction refinement. In the domain of linear integer arithmetic (LIA), interpolants are crucial for deriving inductive invariants that characterize unreachable or safe program states, enabling scalable and precise reasoning about software and hardware correctness. Despite progress in interpolation algorithms, generating concise and interpretable interpolants remains a key challenge. We propose a lightweight learning-based approach to generating simple interpolants for LIA. Our model learns to lazily sample input problems directly and is complementary to existing logical methods. When Z3 is guided by our learned model, the complexity of the interpolants it produces can be reduced by up to 47.3%. For older solvers, the reduction rate can reach up to 69.1%.
Generalization Bounds for Kolmogorov-Arnold Networks (KANs) and Enhanced KANs with Lower Lipschitz Complexity
Authors: Pengqi Li; Lizhong Ding; Jiarun Fu; ChunhuiZhang; Guoren Wang; Ye Yuan
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Kolmogorov-Arnold Networks (KANs) have demonstrated remarkable expressive capacity and predictive power in symbolic learning. However, existing generalization errors of KANs primarily focus on approximation errors while neglecting estimation errors, leading to a suboptimal bias-variance trade-off and poor generalization performance. Meanwhile, the unclear generalization mechanism hinders the design of more effective KANs variants. As the authors of KANs highlighted, they ``would like to explore ways to restrict KANs' hypothesis space so that they can achieve good performance''. To address these challenges, we explore the generalization mechanism of KANs and design more effective KANs with lower model complexity and better generalization. We define \textit{Lipschitz complexity} as the first structural measure for deep functions represented by KANs and derive novel generalization bounds based on \textit{Lipschitz complexity}, establishing a theoretical foundation for understanding their generalization behavior. To reduce \textit{Lipschitz complexity} and boost the generalization mechanism of KANs, we propose Lipschitz-Enhanced KANs ($\textbf{LipKANs}$) by integrating the Lip layer and pioneering the $L_{1.5}$-regularized loss, contributing to tighter generalization bounds. Empirical experiments validate that the proposed LipKANs enhance the generalization mechanism of KANs when modeling complex distributions. We hope our theoretical bounds and LipKANs lay a foundation for the future development of KANs.
The Implicit Bias of Structured State Space  Models Can Be Poisoned With Clean Labels
Authors: Yonatan Slutzky; Yotam Alexander; Noam Razin; Nadav Cohen
Venue: NeurIPS 2025 (NeurIPS 2025 spotlight)

Abstract: Neural networks are powered by an implicit bias: a tendency of gradient descent to fit training data in a way that generalizes to unseen data. A recent class of neural network models gaining increasing popularity is structured state space models (SSMs). Prior work argued that the implicit bias of SSMs leads to generalization in a setting where data is generated by a low dimensional teacher. In this paper, we revisit the latter setting, and formally establish a phenomenon entirely undetected by prior work on the implicit bias of SSMs. Namely, we prove that while implicit bias leads to generalization under many choices of training data, there exist special examples whose inclusion in training completely distorts the implicit bias, to a point where generalization fails. This failure occurs despite the special training examples being labeled by the teacher, i.e., having clean labels! We empirically demonstrate the phenomenon, with SSMs trained independently and as part of non-linear neural networks. In the area of adversarial machine learning, disrupting generalization with cleanly labeled training examples is known as clean-label poisoning. Given the proliferation of SSMs, we believe that delineating their susceptibility to clean-label poisoning, and developing methods for overcoming this susceptibility, are critical research directions to pursue.
BioCG: Constrained Generative Modeling for Biochemical Interaction Prediction
Authors: Amitay Sicherman; Kira Radinsky
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Predicting interactions between biochemical entities is a core challenge in drug discovery and systems biology, often hindered by limited data and poor generalization to unseen entities. Traditional discriminative models frequently underperform in such settings. We propose BioCG (Biochemical Constrained Generation), a novel framework that reformulates interaction prediction as a constrained sequence generation task. BioCG encodes target entities as unique discrete sequences via Iterative Residual Vector Quantization (I-RVQ) and trains a generative model to produce the sequence of an interacting partner given a query entity. A trie-guided constrained decoding mechanism, built from a catalog of valid target sequences, concentrates the model's learning on the critical distinctions between valid biochemical options, ensuring all outputs correspond to an entity within the pre-defined target catalog. An information-weighted training objective further focuses learning on the most critical decision points. BioCG achieves state-of-the-art (SOTA) performance across diverse tasks, Drug-Target Interaction (DTI), Drug-Drug Interaction (DDI), and Enzyme-Reaction Prediction, especially in data-scarce and cold-start conditions. On the BioSNAP DTI benchmark, for example, BioCG attains an AUC of 89.31\% on unseen proteins, representing a 14.3 percentage point gain over prior SOTA. By directly generating interacting partners from a known biochemical space, BioCG provides a robust and data-efficient solution for in-silico biochemical discovery.
StreamBridge: Turning Your Offline Video Large Language Model into a Proactive Streaming Assistant
Authors: Haibo Wang; Bo Feng; Zhengfeng Lai; Mingze Xu; Shiyu Li; Weifeng Ge; Afshin Dehghan; Meng Cao; Ping Huang
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: We present StreamBridge, a simple yet effective framework that seamlessly transforms offline Video-LLMs into streaming-capable models. It addresses two fundamental challenges in adapting existing models into online scenarios: (1) limited capability for multi-turn real-time understanding, and (2) lack of proactive response mechanisms. Specifically, StreamBridge incorporates (1) a memory buffer combined with a round-decayed compression strategy, supporting long-context multi-turn interactions, and (2) a decoupled, lightweight activation model that can be effortlessly integrated into existing Video-LLMs, enabling continuous proactive responses. To further support StreamBridge, we construct Stream-IT, a large-scale dataset tailored for streaming video understanding, featuring interleaved video-text sequences and diverse instruction formats. Extensive experiments show that StreamBridge significantly improves the streaming understanding capabilities of offline Video-LLMs across various tasks, outperforming even proprietary models such as GPT-4o and Gemini 1.5 Pro. Simultaneously, it achieves competitive or superior performance on standard video understanding benchmarks.
MoonCast: High-Quality Zero-Shot Podcast Generation
Authors: Zeqian Ju; Dongchao Yang; Kai Shen; Yichong Leng; Zhengtao Wang; Songxiang Liu; Xinyu Zhou; Tao Qin; Xiangyang Li; Jianwei Yu; Xu Tan
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Recent advances in text-to-speech synthesis have achieved notable success in generating high-quality short utterances for individual speakers. However, these systems still face challenges when extending their capabilities to long, multi-speaker, and spontaneous dialogues, typical of real-world scenarios such as podcasts. These limitations arise from two primary challenges: 1) long speech: podcasts typically span several minutes, exceeding the upper limit of most existing work; 2) spontaneity: podcasts are marked by their spontaneous, oral nature, which sharply contrasts with formal, written contexts; existing works often fall short in capturing this spontaneity. In this paper, we propose MoonCast, a solution for high-quality zero-shot podcast generation, aiming to synthesize spontaneous podcast-style speech from text-only sources (e.g., stories, technical reports, news in TXT, PDF, or Web URL formats) using the voices of unseen speakers.   To enable long audio generation, we employ a language model with parameter, data, and context scaling to process sequences in an innovative format designed for modeling entire multi-speaker, multi-turn speech interactions. To enhance spontaneity, we observe that ASR transcripts capture spontaneous speech details (e.g., filler words indicating hesitations, and specific punctuation and spaces reflecting breathing pauses), suggesting that these transcripts can serve as a partial indicator of speech spontaneity. Building upon this assumption, we utilize a script generation module to generate scripts incorporating these spontaneous elements. Experiments show MoonCast outperforms baselines, with notable improvements in contextual coherence and spontaneity.
Adaptive Data Analysis for Growing Data
Authors: Neil G Marchant; Benjamin I. P. Rubinstein
Venue: NeurIPS 2025 (NeurIPS 2025 poster)

Abstract: Reuse of data in adaptive workflows poses challenges regarding overfitting and the statistical validity of results. Previous work has demonstrated that interacting with data via differentially private algorithms can mitigate overfitting, achieving worst-case generalization guarantees with asymptotically optimal data requirements. However, such past work assumes data is _static_ and cannot accommodate situations where data _grows_ over time. In this paper we address this gap, presenting the first generalization bounds for adaptive analysis on dynamic data. We allow the analyst to adaptively _schedule_ their queries conditioned on the current size of the data, in addition to previous queries and responses. We also incorporate time-varying empirical accuracy bounds and mechanisms, allowing for tighter guarantees as data accumulates. In a batched query setting, the asymptotic data requirements of our bound grows with the square-root of the number of adaptive queries, matching prior works' improvement over data splitting for the static setting. We instantiate our bound for statistical queries with the clipped Gaussian mechanism, where it empirically outperforms baselines composed from static bounds.