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Xinyi Zhang

Publications and source records attributed to Xinyi Zhang.

At least 91 records · Page 5Linked to original sources
arXiv2024

MoFormer: Multi-objective Antimicrobial Peptide Generation Based on Conditional Transformer Joint Multi-modal Fusion Descriptor

Deep learning holds a big promise for optimizing existing peptides with more desirable properties, a critical step towards accelerating new drug discovery. Despite the recent emergence of several optimized Antimicrobial peptides(AMP) generation methods, multi-objective optimizations remain still quite challenging for the idealism-realism tradeoff. Here, we establish a multi-objective AMP synthesis pipeline (MoFormer) for the simultaneous optimization of multi-attributes of AMPs. MoFormer improves the desired attributes of AMP sequences in a highly structured latent space, guided by conditional constraints and fine-grained multi-descriptor.We show that MoFormer outperforms existing methods in the generation task of enhanced antimicrobial activity and minimal hemolysis. We also utilize a Pareto-based non-dominated sorting algorithm and proxies based on large model fine-tuning to hierarchically rank the candidates. We demonstrate substantial property improvement using MoFormer from two perspectives: (1) employing molecular simulations and scoring interactions among amino acids to decipher the structure and functionality of AMPs; (2) visualizing latent space to examine the qualities and distribution features, verifying an effective means to facilitate multi-objective optimization AMPs with design constraints

q-bio.QM↗
arXiv2024

Review of deep learning models for crypto price prediction: implementation and evaluation

There has been much interest in accurate cryptocurrency price forecast models by investors and researchers. Deep Learning models are prominent machine learning techniques that have transformed various fields and have shown potential for finance and economics. Although various deep learning models have been explored for cryptocurrency price forecasting, it is not clear which models are suitable due to high market volatility. In this study, we review the literature about deep learning for cryptocurrency price forecasting and evaluate novel deep learning models for cryptocurrency stock price prediction. Our deep learning models include variants of long short-term memory (LSTM) recurrent neural networks, variants of convolutional neural networks (CNNs), and the Transformer model. We evaluate univariate and multivariate approaches for multi-step ahead predicting of cryptocurrencies close-price. We also carry out volatility analysis on the four cryptocurrencies which reveals significant fluctuations in their prices throughout the COVID-19 pandemic. Additionally, we investigate the prediction accuracy of two scenarios identified by different training sets for the models. First, we use the pre-COVID-19 datasets to model cryptocurrency close-price forecasting during the early period of COVID-19. Secondly, we utilise data from the COVID-19 period to predict prices for 2023 to 2024. Our results show that the convolutional LSTM with a multivariate approach provides the best prediction accuracy in two major experimental settings. Our results also indicate that the multivariate deep learning models exhibit better performance in forecasting four different cryptocurrencies when compared to the univariate models.

cs.LG↗
arXiv2024

VividPose: Advancing Stable Video Diffusion for Realistic Human Image Animation

Human image animation involves generating a video from a static image by following a specified pose sequence. Current approaches typically adopt a multi-stage pipeline that separately learns appearance and motion, which often leads to appearance degradation and temporal inconsistencies. To address these issues, we propose VividPose, an innovative end-to-end pipeline based on Stable Video Diffusion (SVD) that ensures superior temporal stability. To enhance the retention of human identity, we propose an identity-aware appearance controller that integrates additional facial information without compromising other appearance details such as clothing texture and background. This approach ensures that the generated videos maintain high fidelity to the identity of human subject, preserving key facial features across various poses. To accommodate diverse human body shapes and hand movements, we introduce a geometry-aware pose controller that utilizes both dense rendering maps from SMPL-X and sparse skeleton maps. This enables accurate alignment of pose and shape in the generated videos, providing a robust framework capable of handling a wide range of body shapes and dynamic hand movements. Extensive qualitative and quantitative experiments on the UBCFashion and TikTok benchmarks demonstrate that our method achieves state-of-the-art performance. Furthermore, VividPose exhibits superior generalization capabilities on our proposed in-the-wild dataset. Codes and models will be available.

cs.CV↗
arXiv2024

Generating A Crowdsourced Conversation Dataset to Combat Cybergrooming

Cybergrooming emerges as a growing threat to adolescent safety and mental health. One way to combat cybergrooming is to leverage predictive artificial intelligence (AI) to detect predatory behaviors in social media. However, these methods can encounter challenges like false positives and negative implications such as privacy concerns. Another complementary strategy involves using generative artificial intelligence to empower adolescents by educating them about predatory behaviors. To this end, we envision developing state-of-the-art conversational agents to simulate the conversations between adolescents and predators for educational purposes. Yet, one key challenge is the lack of a dataset to train such conversational agents. In this position paper, we present our motivation for empowering adolescents to cope with cybergrooming. We propose to develop large-scale, authentic datasets through an online survey targeting adolescents and parents. We discuss some initial background behind our motivation and proposed design of the survey, such as situating the participants in artificial cybergrooming scenarios, then allowing participants to respond to the survey to obtain their authentic responses. We also present several open questions related to our proposed approach and hope to discuss them with the workshop attendees.

cs.HC↗
arXiv2024

Towards a systematic study of non-thermal leptogenesis from inflaton decays

This paper investigates non-thermal leptogenesis from inflaton decays in the minimal extension of the canonical type-I seesaw model, where a complex singlet scalar $ϕ$ is introduced to generate the Majorana masses of right-handed neutrinos (RHNs) and to play the role of inflaton. First, we systematically study non-thermal leptogenesis with the least model dependence. We give a general classification of the parameter space and find four characteristic limits by carefully examining the interplay between inflaton decay into RHNs and the decay of RHNs into the standard-model particles. Three of the four limits are truly non-thermal, with a final efficiency larger than that of thermal leptogenesis. Two analytic estimates for these three limits are provided with working conditions to examine the validity. In particular, we find that the {\it strongly non-thermal RHNs} scenario occupies a large parameter space, including the oscillation-preferred $K$ range, and works well for a relatively-low reheating temperature $T^{}_{\rm RH} \geq 10^3~{\rm GeV}$, extending the lower bound on the RHN mass to $2\times 10^{7}~{\rm GeV}$. The lepton flavor effects are discussed. Second, we demonstrate that such a unified picture for inflation, neutrino masses, and baryon number asymmetry can be realized by either a Coleman-Weinberg potential (for the real part of $ϕ$) or a natural inflation potential (for the imaginary part of $ϕ$). The allowed parameter ranges for successful inflation and non-thermal leptogenesis are much more constrained than those without inflationary observations. We find that non-thermal leptogenesis from inflaton decay offers a testable framework for the early Universe. It can be further tested with upcoming cosmological and neutrino data. The model-independent investigation of non-thermal leptogenesis should be useful in exploring this direction.

hep-ph↗
arXiv2024

Biased Binary Attribute Classifiers Ignore the Majority Classes

To visualize the regions of interest that classifiers base their decisions on, different Class Activation Mapping (CAM) methods have been developed. However, all of these techniques target categorical classifiers only, though most real-world tasks are binary classification. In this paper, we extend gradient-based CAM techniques to work with binary classifiers and visualize the active regions for binary facial attribute classifiers. When training an unbalanced binary classifier on an imbalanced dataset, it is well-known that the majority class, i.e. the class with many training samples, is mostly predicted much better than minority class with few training instances. In our experiments on the CelebA dataset, we verify these results, when training an unbalanced classifier to extract 40 facial attributes simultaneously. One would expect that the biased classifier has learned to extract features mainly for the majority classes and that the proportional energy of the activations mainly reside in certain specific regions of the image where the attribute is located. However, we find very little regular activation for samples of majority classes, while the active regions for minority classes seem mostly reasonable and overlap with our expectations. These results suggest that biased classifiers mainly rely on bias activation for majority classes. When training a balanced classifier on the imbalanced data by employing attribute-specific class weights, majority and minority classes are classified similarly well and show expected activations for almost all attributes

cs.CV↗
arXiv2023

Learning Uniform Clusters on Hypersphere for Deep Graph-level Clustering

Graph clustering has been popularly studied in recent years. However, most existing graph clustering methods focus on node-level clustering, i.e., grouping nodes in a single graph into clusters. In contrast, graph-level clustering, i.e., grouping multiple graphs into clusters, remains largely unexplored. Graph-level clustering is critical in a variety of real-world applications, such as, properties prediction of molecules and community analysis in social networks. However, graph-level clustering is challenging due to the insufficient discriminability of graph-level representations, and the insufficient discriminability makes deep clustering be more likely to obtain degenerate solutions (cluster collapse). To address the issue, we propose a novel deep graph-level clustering method called Uniform Deep Graph Clustering (UDGC). UDGC assigns instances evenly to different clusters and then scatters those clusters on unit hypersphere, leading to a more uniform cluster-level distribution and a slighter cluster collapse. Specifically, we first propose Augmentation-Consensus Optimal Transport (ACOT) for generating uniformly distributed and reliable pseudo labels for partitioning clusters. Then we adopt contrastive learning to scatter those clusters. Besides, we propose Center Alignment Optimal Transport (CAOT) for guiding the model to learn better parameters, which further promotes the cluster performance. Our empirical study on eight well-known datasets demonstrates that UDGC significantly outperforms the state-of-the-art models.

cs.LG↗
arXiv2023

SIAD: Self-supervised Image Anomaly Detection System

Recent trends in AIGC effectively boosted the application of visual inspection. However, most of the available systems work in a human-in-the-loop manner and can not provide long-term support to the online application. To make a step forward, this paper outlines an automatic annotation system called SsaA, working in a self-supervised learning manner, for continuously making the online visual inspection in the manufacturing automation scenarios. Benefit from the self-supervised learning, SsaA is effective to establish a visual inspection application for the whole life-cycle of manufacturing. In the early stage, with only the anomaly-free data, the unsupervised algorithms are adopted to process the pretext task and generate coarse labels for the following data. Then supervised algorithms are trained for the downstream task. With user-friendly web-based interfaces, SsaA is very convenient to integrate and deploy both of the unsupervised and supervised algorithms. So far, the SsaA system has been adopted for some real-life industrial applications.

cs.CV↗
arXiv2023

ContTune: Continuous Tuning by Conservative Bayesian Optimization for Distributed Stream Data Processing Systems

The past decade has seen rapid growth of distributed stream data processing systems. Under these systems, a stream application is realized as a Directed Acyclic Graph (DAG) of operators, where the level of parallelism of each operator has a substantial impact on its overall performance. However, finding optimal levels of parallelism remains challenging. Most existing methods are heavily coupled with the topological graph of operators, unable to efficiently tune under-provisioned jobs. They either insufficiently use previous tuning experience by treating successively tuning independently, or explore the configuration space aggressively, violating the Service Level Agreements (SLA). To address the above problems, we propose ContTune, a continuous tuning system for stream applications. It is equipped with a novel Big-small algorithm, in which the Big phase decouples the tuning from the topological graph by decomposing the job tuning problem into sub-problems that can be solved concurrently. We propose a conservative Bayesian Optimization (CBO) technique in the Small phase to speed up the tuning process by utilizing the previous observations. It leverages the state-of-the-art (SOTA) tuning method as conservative exploration to avoid SLA violations. Experimental results show that ContTune reduces up to 60.75% number of reconfigurations under synthetic workloads and up to 57.5% number of reconfigurations under real workloads, compared to the SOTA method DS2.

cs.DB↗
arXiv2023

Towards General and Efficient Online Tuning for Spark

The distributed data analytic system -- Spark is a common choice for processing massive volumes of heterogeneous data, while it is challenging to tune its parameters to achieve high performance. Recent studies try to employ auto-tuning techniques to solve this problem but suffer from three issues: limited functionality, high overhead, and inefficient search. In this paper, we present a general and efficient Spark tuning framework that can deal with the three issues simultaneously. First, we introduce a generalized tuning formulation, which can support multiple tuning goals and constraints conveniently, and a Bayesian optimization (BO) based solution to solve this generalized optimization problem. Second, to avoid high overhead from additional offline evaluations in existing methods, we propose to tune parameters along with the actual periodic executions of each job (i.e., online evaluations). To ensure safety during online job executions, we design a safe configuration acquisition method that models the safe region. Finally, three innovative techniques are leveraged to further accelerate the search process: adaptive sub-space generation, approximate gradient descent, and meta-learning method. We have implemented this framework as an independent cloud service, and applied it to the data platform in Tencent. The empirical results on both public benchmarks and large-scale production tasks demonstrate its superiority in terms of practicality, generality, and efficiency. Notably, this service saves an average of 57.00% memory cost and 34.93% CPU cost on 25K in-production tasks within 20 iterations, respectively.

cs.DC↗
arXiv2023

Supervised Principal Component Regression for Functional Responses with High Dimensional Predictors

We propose a supervised principal component regression method for relating functional responses with high dimensional predictors. Unlike the conventional principal component analysis, the proposed method builds on a newly defined expected integrated residual sum of squares, which directly makes use of the association between the functional response and the predictors. Minimizing the integrated residual sum of squares gives the supervised principal components, which is equivalent to solving a sequence of nonconvex generalized Rayleigh quotient optimization problems. We reformulate the nonconvex optimization problems into a simultaneous linear regression with a sparse penalty to deal with high dimensional predictors. Theoretically, we show that the reformulated regression problem can recover the same supervised principal subspace under certain conditions. Statistically, we establish non-asymptotic error bounds for the proposed estimators when the covariate covariance is bandable. We demonstrate the advantages of the proposed method through numerical experiments and an application to the Human Connectome Project fMRI data.

stat.ME↗
arXiv2023

Learning to Dexterously Pick or Separate Tangled-Prone Objects for Industrial Bin Picking

Industrial bin picking for tangled-prone objects requires the robot to either pick up untangled objects or perform separation manipulation when the bin contains no isolated objects. The robot must be able to flexibly perform appropriate actions based on the current observation. It is challenging due to high occlusion in the clutter, elusive entanglement phenomena, and the need for skilled manipulation planning. In this paper, we propose an autonomous, effective and general approach for picking up tangled-prone objects for industrial bin picking. First, we learn PickNet - a network that maps the visual observation to pixel-wise possibilities of picking isolated objects or separating tangled objects and infers the corresponding grasp. Then, we propose two effective separation strategies: Dropping the entangled objects into a buffer bin to reduce the degree of entanglement; Pulling to separate the entangled objects in the buffer bin planned by PullNet - a network that predicts position and direction for pulling from visual input. To efficiently collect data for training PickNet and PullNet, we embrace the self-supervised learning paradigm using an algorithmic supervisor in a physics simulator. Real-world experiments show that our policy can dexterously pick up tangled-prone objects with success rates of 90%. We further demonstrate the generalization of our policy by picking a set of unseen objects. Supplementary material, code, and videos can be found at https://xinyiz0931.github.io/tangle.

cs.RO↗
arXiv2023

A Closed-Loop Bin Picking System for Entangled Wire Harnesses using Bimanual and Dynamic Manipulation

This paper addresses the challenge of industrial bin picking using entangled wire harnesses. Wire harnesses are essential in manufacturing but poses challenges in automation due to their complex geometries and propensity for entanglement. Our previous work tackled this issue by proposing a quasi-static pulling motion to separate the entangled wire harnesses. However, it still lacks sufficiency and generalization to various shapes and structures. In this paper, we deploy a dual-arm robot that can grasp, extract and disentangle wire harnesses from dense clutter using dynamic manipulation. The robot can swing to dynamically discard the entangled objects and regrasp to adjust the undesirable grasp pose. To improve the robustness and accuracy of the system, we leverage a closed-loop framework that uses haptic feedback to detect entanglement in real-time and flexibly adjust system parameters. Our bin picking system achieves an overall success rate of 91.2% in the real-world experiments using two different types of long wire harnesses. It demonstrates the effectiveness of our system in handling various wire harnesses for industrial bin picking.

cs.RO↗
arXiv2023

PerFedRec++: Enhancing Personalized Federated Recommendation with Self-Supervised Pre-Training

Federated recommendation systems employ federated learning techniques to safeguard user privacy by transmitting model parameters instead of raw user data between user devices and the central server. Nevertheless, the current federated recommender system faces challenges such as heterogeneity and personalization, model performance degradation, and communication bottleneck. Previous studies have attempted to address these issues, but none have been able to solve them simultaneously. In this paper, we propose a novel framework, named PerFedRec++, to enhance the personalized federated recommendation with self-supervised pre-training. Specifically, we utilize the privacy-preserving mechanism of federated recommender systems to generate two augmented graph views, which are used as contrastive tasks in self-supervised graph learning to pre-train the model. Pre-training enhances the performance of federated models by improving the uniformity of representation learning. Also, by providing a better initial state for federated training, pre-training makes the overall training converge faster, thus alleviating the heavy communication burden. We then construct a collaborative graph to learn the client representation through a federated graph neural network. Based on these learned representations, we cluster users into different user groups and learn personalized models for each cluster. Each user learns a personalized model by combining the global federated model, the cluster-level federated model, and its own fine-tuned local model. Experiments on three real-world datasets show that our proposed method achieves superior performance over existing methods.

cs.IR↗
arXiv2023

A Unified and Efficient Coordinating Framework for Autonomous DBMS Tuning

Recently using machine learning (ML) based techniques to optimize modern database management systems has attracted intensive interest from both industry and academia. With an objective to tune a specific component of a DBMS (e.g., index selection, knobs tuning), the ML-based tuning agents have shown to be able to find better configurations than experienced database administrators. However, one critical yet challenging question remains unexplored -- how to make those ML-based tuning agents work collaboratively. Existing methods do not consider the dependencies among the multiple agents, and the model used by each agent only studies the effect of changing the configurations in a single component. To tune different components for DBMS, a coordinating mechanism is needed to make the multiple agents cognizant of each other. Also, we need to decide how to allocate the limited tuning budget among the agents to maximize the performance. Such a decision is difficult to make since the distribution of the reward for each agent is unknown and non-stationary. In this paper, we study the above question and present a unified coordinating framework to efficiently utilize existing ML-based agents. First, we propose a message propagation protocol that specifies the collaboration behaviors for agents and encapsulates the global tuning messages in each agent's model. Second, we combine Thompson Sampling, a well-studied reinforcement learning algorithm with a memory buffer so that our framework can allocate budget judiciously in a non-stationary environment. Our framework defines the interfaces adapted to a broad class of ML-based tuning agents, yet simple enough for integration with existing implementations and future extensions. We show that it can effectively utilize different ML-based agents and find better configurations with 1.4~14.1X speedups on the workload execution time compared with baselines.

cs.DB↗
arXiv2023

Leptogenesis from low-energy CP violation in minimal left-right symmetric model

We perform a thermal unflavored leptogenesis analysis on minimal left-right symmetric models with discrete left-right symmetry identified as generalized parity or charge conjugation. When left-right symmetry is unbroken in the lepton Yukawa sector, the neutrino Dirac coupling matrix is completely determined by neutrino masses and mixing angles, allowing CP violation needed to generate leptogenesis totally resides in the low-energy sector. With two lepton asymmetry generation ways, both type I and mixed type I$+$II neutrino mass generation mechanisms are considered. After solving the Boltzmann equations numerically, we find that the low-energy CP phases in the lepton mixing matrix can successfully produce the observed baryon asymmetry, and in some cases, the Dirac CP phase can be the only source of CP violation. Finally, we discuss the interplay among low-energy CP phase measurements, leptogenesis, and neutrinoless double beta decay. We show that the viable models for successful leptogenesis can be probed in next-generation neutrinoless double-beta decay experiments.

hep-ph↗
arXiv2023

Transfer Learning for Bayesian Optimization: A Survey

A wide spectrum of design and decision problems, including parameter tuning, A/B testing and drug design, intrinsically are instances of black-box optimization. Bayesian optimization (BO) is a powerful tool that models and optimizes such expensive "black-box" functions. However, at the beginning of optimization, vanilla Bayesian optimization methods often suffer from slow convergence issue due to inaccurate modeling based on few trials. To address this issue, researchers in the BO community propose to incorporate the spirit of transfer learning to accelerate optimization process, which could borrow strength from the past tasks (source tasks) to accelerate the current optimization problem (target task). This survey paper first summarizes transfer learning methods for Bayesian optimization from four perspectives: initial points design, search space design, surrogate model, and acquisition function. Then it highlights its methodological aspects and technical details for each approach. Finally, it showcases a wide range of applications and proposes promising future directions.

cs.LG↗
arXiv2023

TESS Asteroseismic Analysis of HD 76920: The Giant Star Hosting An Extremely Eccentric Exoplanet

The Transiting Exoplanet Survey Satellite (TESS) mission searches for new exoplanets. The observing strategy of TESS results in high-precision photometry of millions of stars across the sky, allowing for detailed asteroseismic studies of individual systems. In this work, we present a detailed asteroseismic analysis of the giant star HD 76920 hosting a highly eccentric giant planet ($e = 0.878$) with an orbital period of 415 days, using 5 sectors of TESS light curve that cover around 140 days of data. Solar-like oscillations in HD 76920 are detected around $52 \, μ$Hz by TESS for the first time. By utilizing asteroseismic modeling that takes classical observational parameters and stellar oscillation frequencies as constraints, we determine improved measurements of the stellar mass ($1.22 \pm 0.11\, M_\odot$), radius ($8.68 \pm 0.34\,R_\odot$), and age ($5.2 \pm 1.4\,$Gyr). With the updated parameters of the host star, we update the semi-major axis and mass of the planet as $a=1.165 \pm 0.035$ au and $M_{\rm p}\sin{i} = 3.57 \pm 0.22\,M_{\rm Jup}$. With an orbital pericenter of $0.142 \pm 0.005$ au, we confirm that the planet is currently far away enough from the star to experience negligible tidal decay until being engulfed in the stellar envelope. We also confirm that this event will occur within about 100\,Myr, depending on the stellar model used.

astro-ph.SR↗