arXiv subjects

Yu Li

Publications and source records attributed to Yu Li.

At least 379 records · Page 21Linked to original sources

arXiv2024

Progressive3D: Progressively Local Editing for Text-to-3D Content Creation with Complex Semantic Prompts

Recent text-to-3D generation methods achieve impressive 3D content creation capacity thanks to the advances in image diffusion models and optimizing strategies. However, current methods struggle to generate correct 3D content for a complex prompt in semantics, i.e., a prompt describing multiple interacted objects binding with different attributes. In this work, we propose a general framework named Progressive3D, which decomposes the entire generation into a series of locally progressive editing steps to create precise 3D content for complex prompts, and we constrain the content change to only occur in regions determined by user-defined region prompts in each editing step. Furthermore, we propose an overlapped semantic component suppression technique to encourage the optimization process to focus more on the semantic differences between prompts. Extensive experiments demonstrate that the proposed Progressive3D framework generates precise 3D content for prompts with complex semantics and is general for various text-to-3D methods driven by different 3D representations.

cs.CV↗

arXiv2024

AdaShield: Safeguarding Multimodal Large Language Models from Structure-based Attack via Adaptive Shield Prompting

With the advent and widespread deployment of Multimodal Large Language Models (MLLMs), the imperative to ensure their safety has become increasingly pronounced. However, with the integration of additional modalities, MLLMs are exposed to new vulnerabilities, rendering them prone to structured-based jailbreak attacks, where semantic content (e.g., "harmful text") has been injected into the images to mislead MLLMs. In this work, we aim to defend against such threats. Specifically, we propose \textbf{Ada}ptive \textbf{Shield} Prompting (\textbf{AdaShield}), which prepends inputs with defense prompts to defend MLLMs against structure-based jailbreak attacks without fine-tuning MLLMs or training additional modules (e.g., post-stage content detector). Initially, we present a manually designed static defense prompt, which thoroughly examines the image and instruction content step by step and specifies response methods to malicious queries. Furthermore, we introduce an adaptive auto-refinement framework, consisting of a target MLLM and a LLM-based defense prompt generator (Defender). These components collaboratively and iteratively communicate to generate a defense prompt. Extensive experiments on the popular structure-based jailbreak attacks and benign datasets show that our methods can consistently improve MLLMs' robustness against structure-based jailbreak attacks without compromising the model's general capabilities evaluated on standard benign tasks. Our code is available at https://github.com/rain305f/AdaShield.

cs.CR↗

arXiv2024

MoleculeQA: A Dataset to Evaluate Factual Accuracy in Molecular Comprehension

Large language models are playing an increasingly significant role in molecular research, yet existing models often generate erroneous information, posing challenges to accurate molecular comprehension. Traditional evaluation metrics for generated content fail to assess a model's accuracy in molecular understanding. To rectify the absence of factual evaluation, we present MoleculeQA, a novel question answering (QA) dataset which possesses 62K QA pairs over 23K molecules. Each QA pair, composed of a manual question, a positive option and three negative options, has consistent semantics with a molecular description from authoritative molecular corpus. MoleculeQA is not only the first benchmark for molecular factual bias evaluation but also the largest QA dataset for molecular research. A comprehensive evaluation on MoleculeQA for existing molecular LLMs exposes their deficiencies in specific areas and pinpoints several particularly crucial factors for molecular understanding.

cs.CL↗

arXiv2024

UniDoorManip: Learning Universal Door Manipulation Policy Over Large-scale and Diverse Door Manipulation Environments

Learning a universal manipulation policy encompassing doors with diverse categories, geometries and mechanisms, is crucial for future embodied agents to effectively work in complex and broad real-world scenarios. Due to the limited datasets and unrealistic simulation environments, previous works fail to achieve good performance across various doors. In this work, we build a novel door manipulation environment reflecting different realistic door manipulation mechanisms, and further equip this environment with a large-scale door dataset covering 6 door categories with hundreds of door bodies and handles, making up thousands of different door instances. Additionally, to better emulate real-world scenarios, we introduce a mobile robot as the agent and use the partial and occluded point cloud as the observation, which are not considered in previous works while possessing significance for real-world implementations. To learn a universal policy over diverse doors, we propose a novel framework disentangling the whole manipulation process into three stages, and integrating them by training in the reversed order of inference. Extensive experiments validate the effectiveness of our designs and demonstrate our framework's strong performance. Code, data and videos are avaible on https://unidoormanip.github.io/.

cs.RO↗

arXiv2024

A Framework for Cost-Effective and Self-Adaptive LLM Shaking and Recovery Mechanism

As Large Language Models (LLMs) gain great success in real-world applications, an increasing number of users are seeking to develop and deploy their customized LLMs through cloud services. Nonetheless, in some specific domains, there are still concerns regarding cost and trade-offs between privacy issues and accuracy. In this study, we introduce a cost-effective and self-adaptive LLM shaking tuning and recovery mechanism, named CypherTalk. With carefully designed horizontal and vertical shaking operators, we can achieve comparable accuracy results with SOTA privacy-preserving LLM schemes using Cryptography-based or Differential Privacy-based methods. Experiments also show that with the CypherTalk framework, users can achieve reliable accuracy when using optimized shaking operator settings. To our best knowledge, this is the first work that considers cost, and trade-off between model utility and privacy in LLM scenarios.

cs.CR↗

arXiv2024

Articulated Object Manipulation with Coarse-to-fine Affordance for Mitigating the Effect of Point Cloud Noise

3D articulated objects are inherently challenging for manipulation due to the varied geometries and intricate functionalities associated with articulated objects.Point-level affordance, which predicts the per-point actionable score and thus proposes the best point to interact with, has demonstrated excellent performance and generalization capabilities in articulated object manipulation. However, a significant challenge remains: while previous works use perfect point cloud generated in simulation, the models cannot directly apply to the noisy point cloud in the real-world. To tackle this challenge, we leverage the property of real-world scanned point cloud that, the point cloud becomes less noisy when the camera is closer to the object. Therefore, we propose a novel coarse-to-fine affordance learning pipeline to mitigate the effect of point cloud noise in two stages. In the first stage, we learn the affordance on the noisy far point cloud which includes the whole object to propose the approximated place to manipulate. Then, we move the camera in front of the approximated place, scan a less noisy point cloud containing precise local geometries for manipulation, and learn affordance on such point cloud to propose fine-grained final actions. The proposed method is thoroughly evaluated both using large-scale simulated noisy point clouds mimicking real-world scans, and in the real world scenarios, with superiority over existing methods, demonstrating the effectiveness in tackling the noisy real-world point cloud problem.

cs.RO↗

arXiv2024

Protein Multimer Structure Prediction via Prompt Learning

Understanding the 3D structures of protein multimers is crucial, as they play a vital role in regulating various cellular processes. It has been empirically confirmed that the multimer structure prediction~(MSP) can be well handled in a step-wise assembly fashion using provided dimer structures and predicted protein-protein interactions~(PPIs). However, due to the biological gap in the formation of dimers and larger multimers, directly applying PPI prediction techniques can often cause a \textit{poor generalization} to the MSP task. To address this challenge, we aim to extend the PPI knowledge to multimers of different scales~(i.e., chain numbers). Specifically, we propose \textbf{\textsc{PromptMSP}}, a pre-training and \textbf{Prompt} tuning framework for \textbf{M}ultimer \textbf{S}tructure \textbf{P}rediction. First, we tailor the source and target tasks for effective PPI knowledge learning and efficient inference, respectively. We design PPI-inspired prompt learning to narrow the gaps of two task formats and generalize the PPI knowledge to multimers of different scales. We provide a meta-learning strategy to learn a reliable initialization of the prompt model, enabling our prompting framework to effectively adapt to limited data for large-scale multimers. Empirically, we achieve both significant accuracy (RMSD and TM-Score) and efficiency improvements compared to advanced MSP models. The code, data and checkpoints are released at \url{https://github.com/zqgao22/PromptMSP}.

cs.CE↗

arXiv2024

Real-time High-resolution View Synthesis of Complex Scenes with Explicit 3D Visibility Reasoning

Rendering photo-realistic novel-view images of complex scenes has been a long-standing challenge in computer graphics. In recent years, great research progress has been made on enhancing rendering quality and accelerating rendering speed in the realm of view synthesis. However, when rendering complex dynamic scenes with sparse views, the rendering quality remains limited due to occlusion problems. Besides, for rendering high-resolution images on dynamic scenes, the rendering speed is still far from real-time. In this work, we propose a generalizable view synthesis method that can render high-resolution novel-view images of complex static and dynamic scenes in real-time from sparse views. To address the occlusion problems arising from the sparsity of input views and the complexity of captured scenes, we introduce an explicit 3D visibility reasoning approach that can efficiently estimate the visibility of sampled 3D points to the input views. The proposed visibility reasoning approach is fully differentiable and can gracefully fit inside the volume rendering pipeline, allowing us to train our networks with only multi-view images as supervision while refining geometry and texture simultaneously. Besides, each module in our pipeline is carefully designed to bypass the time-consuming MLP querying process and enhance the rendering quality of high-resolution images, enabling us to render high-resolution novel-view images in real-time.Experimental results show that our method outperforms previous view synthesis methods in both rendering quality and speed, particularly when dealing with complex dynamic scenes with sparse views.

cs.GR↗

arXiv2024

Progress and Opportunities of Foundation Models in Bioinformatics

Bioinformatics has witnessed a paradigm shift with the increasing integration of artificial intelligence (AI), particularly through the adoption of foundation models (FMs). These AI techniques have rapidly advanced, addressing historical challenges in bioinformatics such as the scarcity of annotated data and the presence of data noise. FMs are particularly adept at handling large-scale, unlabeled data, a common scenario in biological contexts due to the time-consuming and costly nature of experimentally determining labeled data. This characteristic has allowed FMs to excel and achieve notable results in various downstream validation tasks, demonstrating their ability to represent diverse biological entities effectively. Undoubtedly, FMs have ushered in a new era in computational biology, especially in the realm of deep learning. The primary goal of this survey is to conduct a systematic investigation and summary of FMs in bioinformatics, tracing their evolution, current research status, and the methodologies employed. Central to our focus is the application of FMs to specific biological problems, aiming to guide the research community in choosing appropriate FMs for their research needs. We delve into the specifics of the problem at hand including sequence analysis, structure prediction, function annotation, and multimodal integration, comparing the structures and advancements against traditional methods. Furthermore, the review analyses challenges and limitations faced by FMs in biology, such as data noise, model explainability, and potential biases. Finally, we outline potential development paths and strategies for FMs in future biological research, setting the stage for continued innovation and application in this rapidly evolving field. This comprehensive review serves not only as an academic resource but also as a roadmap for future explorations and applications of FMs in biology.

q-bio.QM↗

arXiv2024

A Survey of Reasoning with Foundation Models

Reasoning, a crucial ability for complex problem-solving, plays a pivotal role in various real-world settings such as negotiation, medical diagnosis, and criminal investigation. It serves as a fundamental methodology in the field of Artificial General Intelligence (AGI). With the ongoing development of foundation models, e.g., Large Language Models (LLMs), there is a growing interest in exploring their abilities in reasoning tasks. In this paper, we introduce seminal foundation models proposed or adaptable for reasoning, highlighting the latest advancements in various reasoning tasks, methods, and benchmarks. We then delve into the potential future directions behind the emergence of reasoning abilities within foundation models. We also discuss the relevance of multimodal learning, autonomous agents, and super alignment in the context of reasoning. By discussing these future research directions, we hope to inspire researchers in their exploration of this field, stimulate further advancements in reasoning with foundation models, and contribute to the development of AGI.

cs.AI↗

arXiv2024

Developing ChatGPT for Biology and Medicine: A Complete Review of Biomedical Question Answering

ChatGPT explores a strategic blueprint of question answering (QA) in delivering medical diagnosis, treatment recommendations, and other healthcare support. This is achieved through the increasing incorporation of medical domain data via natural language processing (NLP) and multimodal paradigms. By transitioning the distribution of text, images, videos, and other modalities from the general domain to the medical domain, these techniques have expedited the progress of medical domain question answering (MDQA). They bridge the gap between human natural language and sophisticated medical domain knowledge or expert manual annotations, handling large-scale, diverse, unbalanced, or even unlabeled data analysis scenarios in medical contexts. Central to our focus is the utilizing of language models and multimodal paradigms for medical question answering, aiming to guide the research community in selecting appropriate mechanisms for their specific medical research requirements. Specialized tasks such as unimodal-related question answering, reading comprehension, reasoning, diagnosis, relation extraction, probability modeling, and others, as well as multimodal-related tasks like vision question answering, image caption, cross-modal retrieval, report summarization, and generation, are discussed in detail. Each section delves into the intricate specifics of the respective method under consideration. This paper highlights the structures and advancements of medical domain explorations against general domain methods, emphasizing their applications across different tasks and datasets. It also outlines current challenges and opportunities for future medical domain research, paving the way for continued innovation and application in this rapidly evolving field.

cs.CL↗

arXiv2024

GPAvatar: Generalizable and Precise Head Avatar from Image(s)

Head avatar reconstruction, crucial for applications in virtual reality, online meetings, gaming, and film industries, has garnered substantial attention within the computer vision community. The fundamental objective of this field is to faithfully recreate the head avatar and precisely control expressions and postures. Existing methods, categorized into 2D-based warping, mesh-based, and neural rendering approaches, present challenges in maintaining multi-view consistency, incorporating non-facial information, and generalizing to new identities. In this paper, we propose a framework named GPAvatar that reconstructs 3D head avatars from one or several images in a single forward pass. The key idea of this work is to introduce a dynamic point-based expression field driven by a point cloud to precisely and effectively capture expressions. Furthermore, we use a Multi Tri-planes Attention (MTA) fusion module in the tri-planes canonical field to leverage information from multiple input images. The proposed method achieves faithful identity reconstruction, precise expression control, and multi-view consistency, demonstrating promising results for free-viewpoint rendering and novel view synthesis.

cs.CV↗

arXiv2024

Quantum-geometry-induced anomalous Hall effect in nonunitary superconductors and application to Sr$_2$RuO$_4$

The polar Kerr effect and the closely related anomalous charge Hall effect are among the most distinguishing signatures of the superconducting state in Sr$_2$RuO$_4$, as well as in several other compounds. These effects are often thought to be derived from chiral superconducting pairing, and different mechanisms have been invoked for the explanation. However, the intrinsic mechanisms proposed previously often involve unrealistically strong interband Cooper pairing. In this study we show that, even without interband pairing, nonunitary superconducting states can support intrinsic anomalous charge Hall effect, thanks to the quantum geometric properties of the Bloch electrons. The key here is to have a normal-state spin Hall effect, for which a nonzero spin-orbit coupling is essential. A finite charge Hall effect then naturally arises at the onset of a spin-polarized nonunitary superconducting pairing. It depends on both the spin polarization and the normal-state electron Berry curvature, the latter of which is the imaginary part of the quantum geometric tensor of the Bloch states. Applying our results to the weakly-paired Sr$_2$RuO$_4$ we conclude that, if the reported Kerr effect is of intrinsic origin, the superconducting state is most likely nonunitary and has odd-parity. Our theory may be generalized to other superconductors that exhibit polar Kerr effect.

cond-mat.supr-con↗

arXiv2023

Lateral quantum confinement effect on monolayer high-Tc superconductors

Despite decades of research in spatially confined superconducting systems to understand the modification of superconductivity from reduced length scales, the investigation of the quantum confinement effect on high-temperature superconductors remains an outstanding challenge. Here, we report scanning tunneling spectroscopy measurements on laterally confined FeSe monolayers on SrTiO3 substrates, which are formed by epitaxially growing FeSe films with a coverage less than one unit cell. Comparing to the uniform regions of FeSe monolayers, the peninsula regions at the monolayer boundary exhibit reduced Fermi energy and undiminished superconductivity, leading to a putative crossover from a Bardeen-Cooper-Schrieffer state to a Bose-Einstein condensate state. In isolated FeSe monolayer islands, superconductivity is shown to exist in samples of smaller volume in contrast to conventional superconductors, while the validity of Anderson's criterion remains fulfilled. Our work reveals lateral quantum confinement effects in unconventional superconductors, to enrich the understanding of high-temperature superconductivity in low-dimensional systems.

cond-mat.supr-con↗

arXiv2023

MEAOD: Model Extraction Attack against Object Detectors

The widespread use of deep learning technology across various industries has made deep neural network models highly valuable and, as a result, attractive targets for potential attackers. Model extraction attacks, particularly query-based model extraction attacks, allow attackers to replicate a substitute model with comparable functionality to the victim model and present a significant threat to the confidentiality and security of MLaaS platforms. While many studies have explored threats of model extraction attacks against classification models in recent years, object detection models, which are more frequently used in real-world scenarios, have received less attention. In this paper, we investigate the challenges and feasibility of query-based model extraction attacks against object detection models and propose an effective attack method called MEAOD. It selects samples from the attacker-possessed dataset to construct an efficient query dataset using active learning and enhances the categories with insufficient objects. We additionally improve the extraction effectiveness by updating the annotations of the query dataset. According to our gray-box and black-box scenarios experiments, we achieve an extraction performance of over 70% under the given condition of a 10k query budget.

cs.CR↗

arXiv2023

Atlantis: Enabling Underwater Depth Estimation with Stable Diffusion

Monocular depth estimation has experienced significant progress on terrestrial images in recent years, largely due to deep learning advancements. However, it remains inadequate for underwater scenes, primarily because of data scarcity. Given the inherent challenges of light attenuation and backscattering in water, acquiring clear underwater images or precise depth information is notably difficult and costly. Consequently, learning-based approaches often rely on synthetic data or turn to unsupervised or self-supervised methods to mitigate this lack of data. Nonetheless, the performance of these methods is often constrained by the domain gap and looser constraints. In this paper, we propose a novel pipeline for generating photorealistic underwater images using accurate terrestrial depth data. This approach facilitates the training of supervised models for underwater depth estimation, effectively reducing the performance disparity between terrestrial and underwater environments. Contrary to prior synthetic datasets that merely apply style transfer to terrestrial images without altering the scene content, our approach uniquely creates vibrant, non-existent underwater scenes by leveraging terrestrial depth data through the innovative Stable Diffusion model. Specifically, we introduce a unique Depth2Underwater ControlNet, trained on specially prepared \{Underwater, Depth, Text\} data triplets, for this generation task. Our newly developed dataset enables terrestrial depth estimation models to achieve considerable improvements, both quantitatively and qualitatively, on unseen underwater images, surpassing their terrestrial pre-trained counterparts. Moreover, the enhanced depth accuracy for underwater scenes also aids underwater image restoration techniques that rely on depth maps, further demonstrating our dataset's utility. The dataset will be available at https://github.com/zkawfanx/Atlantis.

cs.CV↗

arXiv2023

Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language model

Signal peptide (SP) is a short peptide located in the N-terminus of proteins. It is essential to target and transfer transmembrane and secreted proteins to correct positions. Compared with traditional experimental methods to identify signal peptides, computational methods are faster and more efficient, which are more practical for analyzing thousands or even millions of protein sequences, especially for metagenomic data. Here we present Unbiased Organism-agnostic Signal Peptide Network (USPNet), a signal peptide classification and cleavage site prediction deep learning method that takes advantage of protein language models. We propose to apply label distribution-aware margin loss to handle data imbalance problems and use evolutionary information of protein to enrich representation and overcome species information dependence.

cs.AI↗

arXiv2023

CLiF-VQA: Enhancing Video Quality Assessment by Incorporating High-Level Semantic Information related to Human Feelings

Video Quality Assessment (VQA) aims to simulate the process of perceiving video quality by the human visual system (HVS). The judgments made by HVS are always influenced by human subjective feelings. However, most of the current VQA research focuses on capturing various distortions in the spatial and temporal domains of videos, while ignoring the impact of human feelings. In this paper, we propose CLiF-VQA, which considers both features related to human feelings and spatial features of videos. In order to effectively extract features related to human feelings from videos, we explore the consistency between CLIP and human feelings in video perception for the first time. Specifically, we design multiple objective and subjective descriptions closely related to human feelings as prompts. Further we propose a novel CLIP-based semantic feature extractor (SFE) which extracts features related to human feelings by sliding over multiple regions of the video frame. In addition, we further capture the low-level-aware features of the video through a spatial feature extraction module. The two different features are then aggregated thereby obtaining the quality score of the video. Extensive experiments show that the proposed CLiF-VQA exhibits excellent performance on several VQA datasets.

cs.CV↗