arXiv subjects

Siqi Liu

Publications and source records attributed to Siqi Liu.

At least 37 records · Page 2Linked to original sources

arXiv2026

Embedding-Based Context-Aware Reranker

Retrieval-Augmented Generation (RAG) systems rely on retrieving relevant evidence from a corpus to support downstream generation. The common practice of splitting a long document into multiple shorter passages enables finer-grained and targeted information retrieval. However, it also introduces challenges when a correct retrieval would require inference across passages, such as resolving coreference, disambiguating entities, and aggregating evidence scattered across multiple sources. Many state-of-the-art (SOTA) reranking methods, despite utilizing powerful large pretrained language models with potentially high inference costs, still neglect the aforementioned challenges. Therefore, we propose Embedding-Based Context-Aware Reranker (EBCAR), a lightweight reranking framework operating directly on embeddings of retrieved passages with enhanced cross-passage understandings through the structural information of the passages and a hybrid attention mechanism, which captures both high-level interactions across documents and low-level relationships within each document. We evaluate EBCAR against SOTA rerankers on the ConTEB benchmark, demonstrating its effectiveness for information retrieval requiring cross-passage inference and its advantages in both accuracy and efficiency.

cs.CL↗

arXiv2026

Mixed Magnification Aggregation for Generalizable Region-Level Representations in Computational Pathology

In recent years, a standard computational pathology workflow has emerged where whole slide images are cropped into tiles, these tiles are processed using a foundation model, and task-specific models are built using the resulting representations. At least 15 different foundation models have been proposed, and the vast majority are trained exclusively with tiles using the 20$\times$ magnification. However, it is well known that certain histologic features can only be discerned with larger context windows and requires a pathologist to zoom in and out when analyzing a whole slide image. Furthermore, creating 224$\times$224 pixel crops at 20$\times$ leads to a large number of tiles per slide, which can be gigapixel in size. To more accurately capture multi-resolution features and investigate the possibility of reducing the number of representations per slide, we propose a region-level mixing encoder. Our approach jointly fuses image tile representations of a mixed magnification foundation model using a masked embedding modeling pretraining step. We explore a design space for pretraining the proposed mixed-magnification region aggregators and evaluate our models on transfer to biomarker prediction tasks representing various cancer types. Results demonstrate cancer dependent improvements in predictive performance, highlighting the importance of spatial context and understanding.

cs.CV↗

arXiv2026

PALUM: Part-based Attention Learning for Unified Motion Retargeting

Retargeting motion between characters with different skeleton structures is a fundamental challenge in computer animation. When source and target characters have vastly different bone arrangements, maintaining the original motion's semantics and quality becomes increasingly difficult. We present PALUM, a novel approach that learns common motion representations across diverse skeleton topologies by partitioning joints into semantic body parts and applying attention mechanisms to capture spatio-temporal relationships. Our method transfers motion to target skeletons by leveraging these skeleton-agnostic representations alongside target-specific structural information. To ensure robust learning and preserve motion fidelity, we introduce a cycle consistency mechanism that maintains semantic coherence throughout the retargeting process. Extensive experiments demonstrate superior performance in handling diverse skeletal structures while maintaining motion realism and semantic fidelity, even when generalizing to previously unseen skeleton-motion combinations. We will make our implementation publicly available to support future research.

cs.CV↗

arXiv2025

PRISM2: Unlocking Multi-Modal General Pathology AI with Clinical Dialogue

Recent rapid progress in the field of computational pathology has been enabled by foundation models. These models are beginning to move beyond encoding image patches towards whole-slide understanding but their clinical utility remains limited. In this work, we present PRISM2, a multimodal slide-level foundation model trained on data from 700,000 diagnostic specimen-report pairs, the largest vision (2.3 million whole slide images) and language (14M question-answer pairs) histopathology dataset to date. By learning through clinical-dialogue supervision, PRISM2 aligns histomorphologic features with the language of diagnostic reasoning, producing slide-level representations that support both direct diagnostic question-answering and transferable embeddings for downstream tasks. Without additional training, PRISM2 matches or exceeds the cancer-detection performance of clinical-grade products. This is observed without loss of generality on other tasks, where PRISM2 achieves top performance. Finally, using survival prediction as the example, we show that task-specific finetuning with a large dataset can outperform task-specific models, further improving performance. These results demonstrate how language-supervised pretraining provides a scalable, clinically grounded signal for learning generalizable pathology representations, bridging human diagnostic reasoning and foundation-model performance.

cs.CV↗

arXiv2025

BIBERT-Pipe on Biomedical Nested Named Entity Linking at BioASQ 2025

Entity linking (EL) for biomedical text is typically benchmarked on English-only corpora with flat mentions, leaving the more realistic scenario of nested and multilingual mentions largely unexplored. We present our system for the BioNNE 2025 Multilingual Biomedical Nested Named Entity Linking shared task (English & Russian), closing this gap with a lightweight pipeline that keeps the original EL model intact and modifies only three task-aligned components: Two-stage retrieval-ranking. We leverage the same base encoder model in both stages: the retrieval stage uses the original pre-trained model, while the ranking stage applies domain-specific fine-tuning. Boundary cues. In the ranking stage, we wrap each mention with learnable [Ms] / [Me] tags, providing the encoder with an explicit, language-agnostic span before robustness to overlap and nesting. Dataset augmentation. We also automatically expand the ranking training corpus with three complementary data sources, enhancing coverage without extra manual annotation. On the BioNNE 2025 leaderboard, our two stage system, bilingual bert (BIBERT-Pipe), ranks third in the multilingual track, demonstrating the effectiveness and competitiveness of these minimal yet principled modifications. Code are publicly available at https://github.com/Kaggle-Competitions-Code/BioNNE-L.

cs.CL↗

arXiv2025

SaD: A Scenario-Aware Discriminator for Speech Enhancement

Generative adversarial network-based models have shown remarkable performance in the field of speech enhancement. However, the current optimization strategies for these models predominantly focus on refining the architecture of the generator or enhancing the quality evaluation metrics of the discriminator. This approach often overlooks the rich contextual information inherent in diverse scenarios. In this paper, we propose a scenario-aware discriminator that captures scene-specific features and performs frequency-domain division, thereby enabling a more accurate quality assessment of the enhanced speech generated by the generator. We conducted comprehensive experiments on three representative models using two publicly available datasets. The results demonstrate that our method can effectively adapt to various generator architectures without altering their structure, thereby unlocking further performance gains in speech enhancement across different scenarios.

cs.SD↗

arXiv2025

Step-Audio 2 Technical Report

This paper presents Step-Audio 2, an end-to-end multi-modal large language model designed for industry-strength audio understanding and speech conversation. By integrating a latent audio encoder and reasoning-centric reinforcement learning (RL), Step-Audio 2 achieves promising performance in automatic speech recognition (ASR) and audio understanding. To facilitate genuine end-to-end speech conversation, Step-Audio 2 incorporates the generation of discrete audio tokens into language modeling, significantly enhancing its responsiveness to paralinguistic information such as speaking styles and emotions. To effectively leverage the rich textual and acoustic knowledge in real-world data, Step-Audio 2 integrates retrieval-augmented generation (RAG) and is able to call external tools such as web search to mitigate hallucination and audio search to switch timbres. Trained on millions of hours of speech and audio data, Step-Audio 2 delivers intelligence and expressiveness across diverse conversational scenarios. Evaluation results demonstrate that Step-Audio 2 achieves state-of-the-art performance on various audio understanding and conversational benchmarks compared to other open-source and commercial solutions. Please visit https://github.com/stepfun-ai/Step-Audio2 for more information.

cs.CL↗

arXiv2025

GraphMMP: A Graph Neural Network Model with Mutual Information and Global Fusion for Multimodal Medical Prognosis

In the field of multimodal medical data analysis, leveraging diverse types of data and understanding their hidden relationships continues to be a research focus. The main challenges lie in effectively modeling the complex interactions between heterogeneous data modalities with distinct characteristics while capturing both local and global dependencies across modalities. To address these challenges, this paper presents a two-stage multimodal prognosis model, GraphMMP, which is based on graph neural networks. The proposed model constructs feature graphs using mutual information and features a global fusion module built on Mamba, which significantly boosts prognosis performance. Empirical results show that GraphMMP surpasses existing methods on datasets related to liver prognosis and the METABRIC study, demonstrating its effectiveness in multimodal medical prognosis tasks.

cs.CV↗

arXiv2025

Introducing Quality Estimation to Machine Translation Post-editing Workflow: An Empirical Study on Its Usefulness

This preliminary study investigates the usefulness of sentence-level Quality Estimation (QE) in English-Chinese Machine Translation Post-Editing (MTPE), focusing on its impact on post-editing speed and student translators' perceptions. It also explores the interaction effects between QE and MT quality, as well as between QE and translation expertise. The findings reveal that QE significantly reduces post-editing time. The examined interaction effects were not significant, suggesting that QE consistently improves MTPE efficiency across medium- and high-quality MT outputs and among student translators with varying levels of expertise. In addition to indicating potentially problematic segments, QE serves multiple functions in MTPE, such as validating translators' evaluations of MT quality and enabling them to double-check translation outputs. However, interview data suggest that inaccurate QE may hinder post-editing processes. This research provides new insights into the strengths and limitations of QE, facilitating its more effective integration into MTPE workflows to enhance translators' productivity.

cs.CL↗

arXiv2025

Personalized Socially Assistive Robots With End-to-End Speech-Language Models For Well-Being Support

Socially assistive robots (SARs) have shown great potential for supplementing well-being support. However, prior studies have found that existing dialogue pipelines for SARs remain limited in real-time latency, back-channeling, and personalized speech dialogue. Toward addressing these limitations, we propose using integrated end-to-end speech-language models (SLMs) with SARs. This work 1) evaluated the usability of an SLM-enabled SAR dialogue system through a small user study, and 2) identified remaining limitations through study user feedback to inform future improvements. We conducted a small within-participant user study with university students (N = 11) whose results showed that participants perceived an SLM-enabled SAR system as capable of providing empathetic feedback, natural turn-taking, back-channeling, and adaptive responses. We also found that participants reported the robot's nonverbal behaviors as lacking variability and synchronization with conversation, and the SLM's verbal feedback as generic and repetitive. These findings highlighted the need for real-time robot movement synchronized with conversation, improved prompting or fine-tuning to generate outputs better aligned with mental health practices, and more expressive, adaptive vocal generation.

cs.RO↗

arXiv2025

Screen Them All: High-Throughput Pan-Cancer Genetic and Phenotypic Biomarker Screening from H&E Whole Slide Images

Molecular assays are standard of care for detecting genomic alterations in cancer prognosis and therapy selection but are costly, tissue-destructive and time-consuming. Artificial intelligence (AI) applied to routine hematoxylin and eosin (H&E)-stained whole slide images (WSIs) offers a fast and economical alternative for screening molecular biomarkers. We introduce OmniScreen, a high-throughput AI-based system leveraging Virchow2 embeddings extracted from 60,529 cancer patients with paired 489-gene MSK-IMPACT targeted biomarker panel and WSIs. Unlike conventional approaches that train separate models for each biomarker, OmniScreen employs a unified model to predict a broad range of clinically relevant biomarkers across cancers, including low-prevalence targets impractical to model individually. OmniScreen reliably identifies therapeutic targets and shared phenotypic features across common and rare tumors. We investigate the biomarker prediction probabilities and accuracies of OmniScreen in relation to tumor area, cohort size, histologic subtype alignment, and pathway-level morphological patterns. These findings underscore the potential of OmniScreen for routine clinical screening.

q-bio.QM↗

arXiv2025

From Black Boxes to Transparent Minds: Evaluating and Enhancing the Theory of Mind in Multimodal Large Language Models

As large language models evolve, there is growing anticipation that they will emulate human-like Theory of Mind (ToM) to assist with routine tasks. However, existing methods for evaluating machine ToM focus primarily on unimodal models and largely treat these models as black boxes, lacking an interpretative exploration of their internal mechanisms. In response, this study adopts an approach based on internal mechanisms to provide an interpretability-driven assessment of ToM in multimodal large language models (MLLMs). Specifically, we first construct a multimodal ToM test dataset, GridToM, which incorporates diverse belief testing tasks and perceptual information from multiple perspectives. Next, our analysis shows that attention heads in multimodal large models can distinguish cognitive information across perspectives, providing evidence of ToM capabilities. Furthermore, we present a lightweight, training-free approach that significantly enhances the model's exhibited ToM by adjusting in the direction of the attention head.

cs.AI↗

arXiv2025

Convex Markov Games: A New Frontier for Multi-Agent Reinforcement Learning

Behavioral diversity, expert imitation, fairness, safety goals and others give rise to preferences in sequential decision making domains that do not decompose additively across time. We introduce the class of convex Markov games that allow general convex preferences over occupancy measures. Despite infinite time horizon and strictly higher generality than Markov games, pure strategy Nash equilibria exist. Furthermore, equilibria can be approximated empirically by performing gradient descent on an upper bound of exploitability. Our experiments reveal novel solutions to classic repeated normal-form games, find fair solutions in a repeated asymmetric coordination game, and prioritize safe long-term behavior in a robot warehouse environment. In the prisoner's dilemma, our algorithm leverages transient imitation to find a policy profile that deviates from observed human play only slightly, yet achieves higher per-player utility while also being three orders of magnitude less exploitable.

cs.GT↗

arXiv2025

Step-Audio-AQAA: a Fully End-to-End Expressive Large Audio Language Model

Large Audio-Language Models (LALMs) have significantly advanced intelligent human-computer interaction, yet their reliance on text-based outputs limits their ability to generate natural speech responses directly, hindering seamless audio interactions. To address this, we introduce Step-Audio-AQAA, a fully end-to-end LALM designed for Audio Query-Audio Answer (AQAA) tasks. The model integrates a dual-codebook audio tokenizer for linguistic and semantic feature extraction, a 130-billion-parameter backbone LLM and a neural vocoder for high-fidelity speech synthesis. Our post-training approach employs interleaved token-output of text and audio to enhance semantic coherence and combines Direct Preference Optimization (DPO) with model merge to improve performance. Evaluations on the StepEval-Audio-360 benchmark demonstrate that Step-Audio-AQAA excels especially in speech control, outperforming the state-of-art LALMs in key areas. This work contributes a promising solution for end-to-end LALMs and highlights the critical role of token-based vocoder in enhancing overall performance for AQAA tasks.

cs.SD↗

arXiv2025

Re-evaluating Open-ended Evaluation of Large Language Models

Evaluation has traditionally focused on ranking candidates for a specific skill. Modern generalist models, such as Large Language Models (LLMs), decidedly outpace this paradigm. Open-ended evaluation systems, where candidate models are compared on user-submitted prompts, have emerged as a popular solution. Despite their many advantages, we show that the current Elo-based rating systems can be susceptible to and even reinforce biases in data, intentional or accidental, due to their sensitivity to redundancies. To address this issue, we propose evaluation as a 3-player game, and introduce novel game-theoretic solution concepts to ensure robustness to redundancy. We show that our method leads to intuitive ratings and provide insights into the competitive landscape of LLM development.

cs.GT↗

arXiv2025

Step-Video-T2V Technical Report: The Practice, Challenges, and Future of Video Foundation Model

We present Step-Video-T2V, a state-of-the-art text-to-video pre-trained model with 30B parameters and the ability to generate videos up to 204 frames in length. A deep compression Variational Autoencoder, Video-VAE, is designed for video generation tasks, achieving 16x16 spatial and 8x temporal compression ratios, while maintaining exceptional video reconstruction quality. User prompts are encoded using two bilingual text encoders to handle both English and Chinese. A DiT with 3D full attention is trained using Flow Matching and is employed to denoise input noise into latent frames. A video-based DPO approach, Video-DPO, is applied to reduce artifacts and improve the visual quality of the generated videos. We also detail our training strategies and share key observations and insights. Step-Video-T2V's performance is evaluated on a novel video generation benchmark, Step-Video-T2V-Eval, demonstrating its state-of-the-art text-to-video quality when compared with both open-source and commercial engines. Additionally, we discuss the limitations of current diffusion-based model paradigm and outline future directions for video foundation models. We make both Step-Video-T2V and Step-Video-T2V-Eval available at https://github.com/stepfun-ai/Step-Video-T2V. The online version can be accessed from https://yuewen.cn/videos as well. Our goal is to accelerate the innovation of video foundation models and empower video content creators.

cs.CV↗

arXiv2025

Suppression of heading errors in Bell-Bloom optically pumped free-induction-decay alkali-metal atomic magnetometers

Heading errors of atomic magnetometers refer to the dependence of measurement results on the sensor orientation with respect to the external magnetic field. There are three main sources of such errors: the light shift effect, the linear nuclear-spin Zeeman effect, and the nonlinear Zeeman effect. In this work, we suppress the former two effects by using the Bell-Bloom optical pumping method and probe the atomic signals while the pumping beam is off, and focus on the heading error induced by nonlinear Zeeman effect while the sensor operates in the geomagnetic field range. We demonstrate several schemes to suppress this remaining heading error within 1 nT using a single magnetometer or a comagnetometer. In the magnetometer system, two schemes are developed to average out the horizontal atomic polarization in space or in time, respectively. In the comagnetometer system, we combine the simultaneously measured Larmor frequencies of two different kinds of alkali atoms to either suppress the heading error or extract the orientation of the pumping beam relative to the bias field.

physics.atom-ph↗

arXiv2025

Step-Audio: Unified Understanding and Generation in Intelligent Speech Interaction

Real-time speech interaction, serving as a fundamental interface for human-machine collaboration, holds immense potential. However, current open-source models face limitations such as high costs in voice data collection, weakness in dynamic control, and limited intelligence. To address these challenges, this paper introduces Step-Audio, the first production-ready open-source solution. Key contributions include: 1) a 130B-parameter unified speech-text multi-modal model that achieves unified understanding and generation, with the Step-Audio-Chat version open-sourced; 2) a generative speech data engine that establishes an affordable voice cloning framework and produces the open-sourced lightweight Step-Audio-TTS-3B model through distillation; 3) an instruction-driven fine control system enabling dynamic adjustments across dialects, emotions, singing, and RAP; 4) an enhanced cognitive architecture augmented with tool calling and role-playing abilities to manage complex tasks effectively. Based on our new StepEval-Audio-360 evaluation benchmark, Step-Audio achieves state-of-the-art performance in human evaluations, especially in terms of instruction following. On open-source benchmarks like LLaMA Question, shows 9.3% average performance improvement, demonstrating our commitment to advancing the development of open-source multi-modal language technologies. Our code and models are available at https://github.com/stepfun-ai/Step-Audio.

cs.CL↗