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Cong Liu

Publications and source records attributed to Cong Liu.

At least 127 records · Page 7Linked to original sources
arXiv2023

Enhancing Phenotype Recognition in Clinical Notes Using Large Language Models: PhenoBCBERT and PhenoGPT

We hypothesize that large language models (LLMs) based on the transformer architecture can enable automated detection of clinical phenotype terms, including terms not documented in the HPO. In this study, we developed two types of models: PhenoBCBERT, a BERT-based model, utilizing Bio+Clinical BERT as its pre-trained model, and PhenoGPT, a GPT-based model that can be initialized from diverse GPT models, including open-source versions such as GPT-J, Falcon, and LLaMA, as well as closed-source versions such as GPT-3 and GPT-3.5. We compared our methods with PhenoTagger, a recently developed HPO recognition tool that combines rule-based and deep learning methods. We found that our methods can extract more phenotype concepts, including novel ones not characterized by HPO. We also performed case studies on biomedical literature to illustrate how new phenotype information can be recognized and extracted. We compared current BERT-based versus GPT-based models for phenotype tagging, in multiple aspects including model architecture, memory usage, speed, accuracy, and privacy protection. We also discussed the addition of a negation step and an HPO normalization layer to the transformer models for improved HPO term tagging. In conclusion, PhenoBCBERT and PhenoGPT enable the automated discovery of phenotype terms from clinical notes and biomedical literature, facilitating automated downstream tasks to derive new biological insights on human diseases.

q-bio.QM↗
arXiv2023

Domain Watermark: Effective and Harmless Dataset Copyright Protection is Closed at Hand

The prosperity of deep neural networks (DNNs) is largely benefited from open-source datasets, based on which users can evaluate and improve their methods. In this paper, we revisit backdoor-based dataset ownership verification (DOV), which is currently the only feasible approach to protect the copyright of open-source datasets. We reveal that these methods are fundamentally harmful given that they could introduce malicious misclassification behaviors to watermarked DNNs by the adversaries. In this paper, we design DOV from another perspective by making watermarked models (trained on the protected dataset) correctly classify some `hard' samples that will be misclassified by the benign model. Our method is inspired by the generalization property of DNNs, where we find a \emph{hardly-generalized domain} for the original dataset (as its \emph{domain watermark}). It can be easily learned with the protected dataset containing modified samples. Specifically, we formulate the domain generation as a bi-level optimization and propose to optimize a set of visually-indistinguishable clean-label modified data with similar effects to domain-watermarked samples from the hardly-generalized domain to ensure watermark stealthiness. We also design a hypothesis-test-guided ownership verification via our domain watermark and provide the theoretical analyses of our method. Extensive experiments on three benchmark datasets are conducted, which verify the effectiveness of our method and its resistance to potential adaptive methods. The code for reproducing main experiments is available at \url{https://github.com/JunfengGo/Domain-Watermark}.

cs.CV↗
arXiv2023

Generative Input: Towards Next-Generation Input Methods Paradigm

Since the release of ChatGPT, generative models have achieved tremendous success and become the de facto approach for various NLP tasks. However, its application in the field of input methods remains under-explored. Many neural network approaches have been applied to the construction of Chinese input method engines(IMEs).Previous research often assumed that the input pinyin was correct and focused on Pinyin-to-character(P2C) task, which significantly falls short of meeting users' demands. Moreover, previous research could not leverage user feedback to optimize the model and provide personalized results. In this study, we propose a novel Generative Input paradigm named GeneInput. It uses prompts to handle all input scenarios and other intelligent auxiliary input functions, optimizing the model with user feedback to deliver personalized results. The results demonstrate that we have achieved state-of-the-art performance for the first time in the Full-mode Key-sequence to Characters(FK2C) task. We propose a novel reward model training method that eliminates the need for additional manual annotations and the performance surpasses GPT-4 in tasks involving intelligent association and conversational assistance. Compared to traditional paradigms, GeneInput not only demonstrates superior performance but also exhibits enhanced robustness, scalability, and online learning capabilities.

cs.CL↗
arXiv2023

MADNet: Maximizing Addressee Deduction Expectation for Multi-Party Conversation Generation

Modeling multi-party conversations (MPCs) with graph neural networks has been proven effective at capturing complicated and graphical information flows. However, existing methods rely heavily on the necessary addressee labels and can only be applied to an ideal setting where each utterance must be tagged with an addressee label. To study the scarcity of addressee labels which is a common issue in MPCs, we propose MADNet that maximizes addressee deduction expectation in heterogeneous graph neural networks for MPC generation. Given an MPC with a few addressee labels missing, existing methods fail to build a consecutively connected conversation graph, but only a few separate conversation fragments instead. To ensure message passing between these conversation fragments, four additional types of latent edges are designed to complete a fully-connected graph. Besides, to optimize the edge-type-dependent message passing for those utterances without addressee labels, an Expectation-Maximization-based method that iteratively generates silver addressee labels (E step), and optimizes the quality of generated responses (M step), is designed. Experimental results on two Ubuntu IRC channel benchmarks show that MADNet outperforms various baseline models on the task of MPC generation, especially under the more common and challenging setting where part of addressee labels are missing.

cs.CL↗
arXiv2023

CPSAA: Accelerating Sparse Attention using Crossbar-based Processing-In-Memory Architecture

The attention mechanism requires huge computational efforts to process unnecessary calculations, significantly limiting the system's performance. Researchers propose sparse attention to convert some DDMM operations to SDDMM and SpMM operations. However, current sparse attention solutions introduce massive off-chip random memory access. We propose CPSAA, a novel crossbar-based PIM-featured sparse attention accelerator. First, we present a novel attention calculation mode. Second, we design a novel PIM-based sparsity pruning architecture. Finally, we present novel crossbar-based methods. Experimental results show that CPSAA has an average of 89.6X, 32.2X, 17.8X, 3.39X, and 3.84X performance improvement and 755.6X, 55.3X, 21.3X, 5.7X, and 4.9X energy-saving when compare with GPU, FPGA, SANGER, ReBERT, and ReTransformer.

cs.AR↗
arXiv2023

R^3: On-device Real-Time Deep Reinforcement Learning for Autonomous Robotics

Autonomous robotic systems, like autonomous vehicles and robotic search and rescue, require efficient on-device training for continuous adaptation of Deep Reinforcement Learning (DRL) models in dynamic environments. This research is fundamentally motivated by the need to understand and address the challenges of on-device real-time DRL, which involves balancing timing and algorithm performance under memory constraints, as exposed through our extensive empirical studies. This intricate balance requires co-optimizing two pivotal parameters of DRL training -- batch size and replay buffer size. Configuring these parameters significantly affects timing and algorithm performance, while both (unfortunately) require substantial memory allocation to achieve near-optimal performance. This paper presents R^3, a holistic solution for managing timing, memory, and algorithm performance in on-device real-time DRL training. R^3 employs (i) a deadline-driven feedback loop with dynamic batch sizing for optimizing timing, (ii) efficient memory management to reduce memory footprint and allow larger replay buffer sizes, and (iii) a runtime coordinator guided by heuristic analysis and a runtime profiler for dynamically adjusting memory resource reservations. These components collaboratively tackle the trade-offs in on-device DRL training, improving timing and algorithm performance while minimizing the risk of out-of-memory (OOM) errors. We implemented and evaluated R^3 extensively across various DRL frameworks and benchmarks on three hardware platforms commonly adopted by autonomous robotic systems. Additionally, we integrate R^3 with a popular realistic autonomous car simulator to demonstrate its real-world applicability. Evaluation results show that R^3 achieves efficacy across diverse platforms, ensuring consistent latency performance and timing predictability with minimal overhead.

cs.RO↗
arXiv2023

PolicyCleanse: Backdoor Detection and Mitigation in Reinforcement Learning

While real-world applications of reinforcement learning are becoming popular, the security and robustness of RL systems are worthy of more attention and exploration. In particular, recent works have revealed that, in a multi-agent RL environment, backdoor trigger actions can be injected into a victim agent (a.k.a. Trojan agent), which can result in a catastrophic failure as soon as it sees the backdoor trigger action. To ensure the security of RL agents against malicious backdoors, in this work, we propose the problem of Backdoor Detection in a multi-agent competitive reinforcement learning system, with the objective of detecting Trojan agents as well as the corresponding potential trigger actions, and further trying to mitigate their Trojan behavior. In order to solve this problem, we propose PolicyCleanse that is based on the property that the activated Trojan agents accumulated rewards degrade noticeably after several timesteps. Along with PolicyCleanse, we also design a machine unlearning-based approach that can effectively mitigate the detected backdoor. Extensive experiments demonstrate that the proposed methods can accurately detect Trojan agents, and outperform existing backdoor mitigation baseline approaches by at least 3% in winning rate across various types of agents and environments.

cs.LG↗
arXiv2023

GLAD: Content-aware Dynamic Graphs For Log Anomaly Detection

Logs play a crucial role in system monitoring and debugging by recording valuable system information, including events and states. Although various methods have been proposed to detect anomalies in log sequences, they often overlook the significance of considering relations among system components, such as services and users, which can be identified from log contents. Understanding these relations is vital for detecting anomalies and their underlying causes. To address this issue, we introduce GLAD, a Graph-based Log Anomaly Detection framework designed to detect relational anomalies in system logs. GLAD incorporates log semantics, relational patterns, and sequential patterns into a unified framework for anomaly detection. Specifically, GLAD first introduces a field extraction module that utilizes prompt-based few-shot learning to identify essential fields from log contents. Then GLAD constructs dynamic log graphs for sliding windows by interconnecting extracted fields and log events parsed from the log parser. These graphs represent events and fields as nodes and their relations as edges. Subsequently, GLAD utilizes a temporal-attentive graph edge anomaly detection model for identifying anomalous relations in these dynamic log graphs. This model employs a Graph Neural Network (GNN)-based encoder enhanced with transformers to capture content, structural and temporal features. We evaluate our proposed method on three datasets, and the results demonstrate the effectiveness of GLAD in detecting anomalies indicated by varying relational patterns.

cs.LG↗
arXiv2023

RT-LM: Uncertainty-Aware Resource Management for Real-Time Inference of Language Models

Recent advancements in language models (LMs) have gained substantial attentions on their capability to generate human-like responses. Though exhibiting a promising future for various applications such as conversation AI, these LMs face deployment challenges on various devices due to their extreme computational cost and unpredictable inference latency. Such varied inference latency, identified as a consequence of uncertainty intrinsic to the nature of language, can lead to computational inefficiency and degrade the overall performance of LMs, especially under high-traffic workloads. Unfortunately, the bandwidth of these uncertainty sources is extensive, complicating the prediction of latency and the effects emanating from such uncertainties. To understand and mitigate the impact of uncertainty on real-time response-demanding systems, we take the first step to comprehend, quantify and optimize these uncertainty-induced latency performance variations in LMs. Specifically, we present RT-LM, an uncertainty-aware resource management ecosystem for real-time inference of LMs. RT-LM innovatively quantifies how specific input uncertainties, adversely affect latency, often leading to an increased output length. Exploiting these insights, we devise a lightweight yet effective method to dynamically correlate input text uncertainties with output length at runtime. Utilizing this quantification as a latency heuristic, we integrate the uncertainty information into a system-level scheduler which explores several uncertainty-induced optimization opportunities, including uncertainty-aware prioritization, dynamic consolidation, and strategic CPU offloading. Quantitative experiments across five state-of-the-art LMs on two hardware platforms demonstrates that RT-LM can significantly reduce the average response time and improve throughput while incurring a rather small runtime overhead.

cs.LG↗
arXiv2023

RED: A Systematic Real-Time Scheduling Approach for Robotic Environmental Dynamics

Intelligent robots are designed to effectively navigate dynamic and unpredictable environments laden with moving mechanical elements and objects. Such environment-induced dynamics, including moving obstacles, can readily alter the computational demand (e.g., the creation of new tasks) and the structure of workloads (e.g., precedence constraints among tasks) during runtime, thereby adversely affecting overall system performance. This challenge is amplified when multi-task inference is expected on robots operating under stringent resource and real-time constraints. To address such a challenge, we introduce RED, a systematic real-time scheduling approach designed to support multi-task deep neural network workloads in resource-limited robotic systems. It is designed to adaptively manage the Robotic Environmental Dynamics (RED) while adhering to real-time constraints. At the core of RED lies a deadline-based scheduler that employs an intermediate deadline assignment policy, effectively managing to change workloads and asynchronous inference prompted by complex, unpredictable environments. This scheduling framework also facilitates the flexible deployment of MIMONet (multi-input multi-output neural networks), which are commonly utilized in multi-tasking robotic systems to circumvent memory bottlenecks. Building on this scheduling framework, RED recognizes and leverages a unique characteristic of MIMONet: its weight-shared architecture. To further accommodate and exploit this feature, RED devises a novel and effective workload refinement and reconstruction process. This process ensures the scheduling framework's compatibility with MIMONet and maximizes efficiency.

cs.RO↗
arXiv2023

4D Myocardium Reconstruction with Decoupled Motion and Shape Model

Estimating the shape and motion state of the myocardium is essential in diagnosing cardiovascular diseases.However, cine magnetic resonance (CMR) imaging is dominated by 2D slices, whose large slice spacing challenges inter-slice shape reconstruction and motion acquisition.To address this problem, we propose a 4D reconstruction method that decouples motion and shape, which can predict the inter-/intra- shape and motion estimation from a given sparse point cloud sequence obtained from limited slices. Our framework comprises a neural motion model and an end-diastolic (ED) shape model. The implicit ED shape model can learn a continuous boundary and encourage the motion model to predict without the supervision of ground truth deformation, and the motion model enables canonical input of the shape model by deforming any point from any phase to the ED phase. Additionally, the constructed ED-space enables pre-training of the shape model, thereby guiding the motion model and addressing the issue of data scarcity. We propose the first 4D myocardial dataset as we know and verify our method on the proposed, public, and cross-modal datasets, showing superior reconstruction performance and enabling various clinical applications.

cs.CV↗
arXiv2023

TinyML Design Contest for Life-Threatening Ventricular Arrhythmia Detection

The first ACM/IEEE TinyML Design Contest (TDC) held at the 41st International Conference on Computer-Aided Design (ICCAD) in 2022 is a challenging, multi-month, research and development competition. TDC'22 focuses on real-world medical problems that require the innovation and implementation of artificial intelligence/machine learning (AI/ML) algorithms on implantable devices. The challenge problem of TDC'22 is to develop a novel AI/ML-based real-time detection algorithm for life-threatening ventricular arrhythmia over low-power microcontrollers utilized in Implantable Cardioverter-Defibrillators (ICDs). The dataset contains more than 38,000 5-second intracardiac electrograms (IEGMs) segments over 8 different types of rhythm from 90 subjects. The dedicated hardware platform is NUCLEO-L432KC manufactured by STMicroelectronics. TDC'22, which is open to multi-person teams world-wide, attracted more than 150 teams from over 50 organizations. This paper first presents the medical problem, dataset, and evaluation procedure in detail. It further demonstrates and discusses the designs developed by the leading teams as well as representative results. This paper concludes with the direction of improvement for the future TinyML design for health monitoring applications.

eess.SP↗
arXiv2023

PIMbot: Policy and Incentive Manipulation for Multi-Robot Reinforcement Learning in Social Dilemmas

Recent research has demonstrated the potential of reinforcement learning (RL) in enabling effective multi-robot collaboration, particularly in social dilemmas where robots face a trade-off between self-interests and collective benefits. However, environmental factors such as miscommunication and adversarial robots can impact cooperation, making it crucial to explore how multi-robot communication can be manipulated to achieve different outcomes. This paper presents a novel approach, namely PIMbot, to manipulating the reward function in multi-robot collaboration through two distinct forms of manipulation: policy and incentive manipulation. Our work introduces a new angle for manipulation in recent multi-agent RL social dilemmas that utilize a unique reward function for incentivization. By utilizing our proposed PIMbot mechanisms, a robot is able to manipulate the social dilemma environment effectively. PIMbot has the potential for both positive and negative impacts on the task outcome, where positive impacts lead to faster convergence to the global optimum and maximized rewards for any chosen robot. Conversely, negative impacts can have a detrimental effect on the overall task performance. We present comprehensive experimental results that demonstrate the effectiveness of our proposed methods in the Gazebo-simulated multi-robot environment. Our work provides insights into how inter-robot communication can be manipulated and has implications for various robotic applications. %, including robotics, transportation, and manufacturing.

cs.RO↗
arXiv2023

Towards Optimal Reconstruction of Shear Field with PDF-Folding

Weak lensing provides a direct way of mapping the density distribution in the universe. To reconstruct the density field from the shear catalog, an important step is to build the shear field from the shear catalog, which can be quite nontrivial due to the inhomogeneity of the background galaxy distribution and the shape noise. We propose the PDF-Folding method as a statistically optimal way of reconstructing the shear field. It is an extention of the PDF-SYM method, which is previously designed for optimizing the stacked shear signal as well as the shear-shear correlation for the Fourier\_Quad shear estimators. PDF-Folding does not require smoothing kernels as in traditional methods, therefore it suffers less information loss on small scales, and avoids possible biases due to the spatial variation of shear on the scale of the kernel. We show with analytic reasoning as well as numerical examples that the new method can reach the optimal signal-to-noise ratio on the reconstructed shear map under general observing conditions, i.e., with inhomogeneous background densities or masks. We also show the performance of the new method on real data around foreground galaxy clusters.

astro-ph.CO↗
arXiv2023

How Does Diffusion Influence Pretrained Language Models on Out-of-Distribution Data?

Transformer-based pretrained language models (PLMs) have achieved great success in modern NLP. An important advantage of PLMs is good out-of-distribution (OOD) robustness. Recently, diffusion models have attracted a lot of work to apply diffusion to PLMs. It remains under-explored how diffusion influences PLMs on OOD data. The core of diffusion models is a forward diffusion process which gradually applies Gaussian noise to inputs, and a reverse denoising process which removes noise. The noised input reconstruction is a fundamental ability of diffusion models. We directly analyze OOD robustness by measuring the reconstruction loss, including testing the abilities to reconstruct OOD data, and to detect OOD samples. Experiments are conducted by analyzing different training parameters and data statistical features on eight datasets. It shows that finetuning PLMs with diffusion degrades the reconstruction ability on OOD data. The comparison also shows that diffusion models can effectively detect OOD samples, achieving state-of-the-art performance in most of the datasets with an absolute accuracy improvement up to 18%. These results indicate that diffusion reduces OOD robustness of PLMs.

cs.CL↗
arXiv2023

GIFT: Graph-Induced Fine-Tuning for Multi-Party Conversation Understanding

Addressing the issues of who saying what to whom in multi-party conversations (MPCs) has recently attracted a lot of research attention. However, existing methods on MPC understanding typically embed interlocutors and utterances into sequential information flows, or utilize only the superficial of inherent graph structures in MPCs. To this end, we present a plug-and-play and lightweight method named graph-induced fine-tuning (GIFT) which can adapt various Transformer-based pre-trained language models (PLMs) for universal MPC understanding. In detail, the full and equivalent connections among utterances in regular Transformer ignore the sparse but distinctive dependency of an utterance on another in MPCs. To distinguish different relationships between utterances, four types of edges are designed to integrate graph-induced signals into attention mechanisms to refine PLMs originally designed for processing sequential texts. We evaluate GIFT by implementing it into three PLMs, and test the performance on three downstream tasks including addressee recognition, speaker identification and response selection. Experimental results show that GIFT can significantly improve the performance of three PLMs on three downstream tasks and two benchmarks with only 4 additional parameters per encoding layer, achieving new state-of-the-art performance on MPC understanding.

cs.CL↗
arXiv2023

DyCL: Dynamic Neural Network Compilation Via Program Rewriting and Graph Optimization

DL compiler's primary function is to translate DNN programs written in high-level DL frameworks such as PyTorch and TensorFlow into portable executables. These executables can then be flexibly executed by the deployed host programs. However, existing DL compilers rely on a tracing mechanism, which involves feeding a runtime input to a neural network program and tracing the program execution paths to generate the computational graph necessary for compilation. Unfortunately, this mechanism falls short when dealing with modern dynamic neural networks (DyNNs) that possess varying computational graphs depending on the inputs. Consequently, conventional DL compilers struggle to accurately compile DyNNs into executable code. To address this limitation, we propose \tool, a general approach that enables any existing DL compiler to successfully compile DyNNs. \tool tackles the dynamic nature of DyNNs by introducing a compilation mechanism that redistributes the control and data flow of the original DNN programs during the compilation process. Specifically, \tool develops program analysis and program transformation techniques to convert a dynamic neural network into multiple sub-neural networks. Each sub-neural network is devoid of conditional statements and is compiled independently. Furthermore, \tool synthesizes a host module that models the control flow of the DyNNs and facilitates the invocation of the sub-neural networks. Our evaluation demonstrates the effectiveness of \tool, achieving a 100\% success rate in compiling all dynamic neural networks. Moreover, the compiled executables generated by \tool exhibit significantly improved performance, running between $1.12\times$ and $20.21\times$ faster than the original DyNNs executed on general-purpose DL frameworks.

cs.CL↗
arXiv2023

Weakly Supervised Scene Text Generation for Low-resource Languages

A large number of annotated training images is crucial for training successful scene text recognition models. However, collecting sufficient datasets can be a labor-intensive and costly process, particularly for low-resource languages. To address this challenge, auto-generating text data has shown promise in alleviating the problem. Unfortunately, existing scene text generation methods typically rely on a large amount of paired data, which is difficult to obtain for low-resource languages. In this paper, we propose a novel weakly supervised scene text generation method that leverages a few recognition-level labels as weak supervision. The proposed method is able to generate a large amount of scene text images with diverse backgrounds and font styles through cross-language generation. Our method disentangles the content and style features of scene text images, with the former representing textual information and the latter representing characteristics such as font, alignment, and background. To preserve the complete content structure of generated images, we introduce an integrated attention module. Furthermore, to bridge the style gap in the style of different languages, we incorporate a pre-trained font classifier. We evaluate our method using state-of-the-art scene text recognition models. Experiments demonstrate that our generated scene text significantly improves the scene text recognition accuracy and help achieve higher accuracy when complemented with other generative methods.

cs.CV↗