Recently, diffusion models have achieved remarkable performance in data generation, e.g., generating high-quality images. Nevertheless, chemistry molecules often have complex non-Euclidean spatial structures, with the behavior changing dynamically and unpredictably. Most existing diffusion models highly rely on computing the probability distribution, i.e., Gaussian distribution, in Euclidean space, which cannot capture internal non-Euclidean structures of molecules, especially the hierarchical structures of the implicit manifold surface represented by molecules. It has been observed that the complex hierarchical structures in hyperbolic embedding space become more prominent and easier to be captured. In order to leverage both the data generation power of diffusion models and the strong capability to extract complex geometric features of hyperbolic embedding, we propose to extend the diffusion model to hyperbolic manifolds for molecule generation, namely, Hyperbolic Graph Diffusion Model (HGDM). The proposed HGDM employs a hyperbolic variational autoencoder to generate the hyperbolic hidden representation of nodes and then a score-based hyperbolic graph neural network is used to learn the distribution in hyperbolic space. Numerical experimental results show that the proposed HGDM achieves higher performance on several molecular datasets, compared with state-of-the-art methods.
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ACM/IEEE第23屆模型驅動工程語言和系統國際會議，是模型驅動軟件和系統工程的首要會議系列，由ACM-SIGSOFT和IEEE-TCSE支持組織。自1998年以來，模型涵蓋了建模的各個方面，從語言和方法到工具和應用程序。模特的參加者來自不同的背景，包括研究人員、學者、工程師和工業專業人士。MODELS 2019是一個論壇，參與者可以圍繞建模和模型驅動的軟件和系統交流前沿研究成果和創新實踐經驗。今年的版本將為建模社區提供進一步推進建模基礎的機會，并在網絡物理系統、嵌入式系統、社會技術系統、云計算、大數據、機器學習、安全、開源等新興領域提出建模的創新應用以及可持續性。
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Diffusion models are a powerful method for generating approximate samples from high-dimensional data distributions. Several recent results have provided polynomial bounds on the convergence rate of such models, assuming $L^2$-accurate score estimators. However, up until now the best known such bounds were either superlinear in the data dimension or required strong smoothness assumptions. We provide the first convergence bounds which are linear in the data dimension (up to logarithmic factors) assuming only finite second moments of the data distribution. We show that diffusion models require at most $\tilde O(\frac{d \log^2(1/\delta)}{\varepsilon^2})$ steps to approximate an arbitrary data distribution on $\mathbb{R}^d$ corrupted with Gaussian noise of variance $\delta$ to within $\varepsilon^2$ in Kullback--Leibler divergence. Our proof builds on the Girsanov-based methods of previous works. We introduce a refined treatment of the error arising from the discretization of the reverse SDE, which is based on tools from stochastic localization.
Transformer has recently gained considerable popularity in low-level vision tasks, including image super-resolution (SR). These networks utilize self-attention along different dimensions, spatial or channel, and achieve impressive performance. This inspires us to combine the two dimensions in Transformer for a more powerful representation capability. Based on the above idea, we propose a novel Transformer model, Dual Aggregation Transformer (DAT), for image SR. Our DAT aggregates features across spatial and channel dimensions, in the inter-block and intra-block dual manner. Specifically, we alternately apply spatial and channel self-attention in consecutive Transformer blocks. The alternate strategy enables DAT to capture the global context and realize inter-block feature aggregation. Furthermore, we propose the adaptive interaction module (AIM) and the spatial-gate feed-forward network (SGFN) to achieve intra-block feature aggregation. AIM complements two self-attention mechanisms from corresponding dimensions. Meanwhile, SGFN introduces additional non-linear spatial information in the feed-forward network. Extensive experiments show that our DAT surpasses current methods. Code and models are obtainable at //github.com/zhengchen1999/DAT.
Diffusion probabilistic models have achieved remarkable success in text guided image generation. However, generating 3D shapes is still challenging due to the lack of sufficient data containing 3D models along with their descriptions. Moreover, text based descriptions of 3D shapes are inherently ambiguous and lack details. In this paper, we propose a sketch and text guided probabilistic diffusion model for colored point cloud generation that conditions the denoising process jointly with a hand drawn sketch of the object and its textual description. We incrementally diffuse the point coordinates and color values in a joint diffusion process to reach a Gaussian distribution. Colored point cloud generation thus amounts to learning the reverse diffusion process, conditioned by the sketch and text, to iteratively recover the desired shape and color. Specifically, to learn effective sketch-text embedding, our model adaptively aggregates the joint embedding of text prompt and the sketch based on a capsule attention network. Our model uses staged diffusion to generate the shape and then assign colors to different parts conditioned on the appearance prompt while preserving precise shapes from the first stage. This gives our model the flexibility to extend to multiple tasks, such as appearance re-editing and part segmentation. Experimental results demonstrate that our model outperforms recent state-of-the-art in point cloud generation.
The concept of programmable matter envisions a very large number of tiny and simple robot particles forming a smart material. Even though the particles are restricted to local communication, local movement, and simple computation, their actions can nevertheless result in the global change of the material's physical properties and geometry. A fundamental algorithmic task for programmable matter is to achieve global shape reconfiguration by specifying local behavior of the particles. In this paper we describe a new approach for shape reconfiguration in the amoebot model. The amoebot model is a distributed model which significantly restricts memory, computing, and communication capacity of the individual particles. Thus the challenge lies in coordinating the actions of particles to produce the desired behavior of the global system. Our reconfiguration algorithm is the first algorithm that does not use a canonical intermediate configuration when transforming between arbitrary shapes. We introduce new geometric primitives for amoebots and show how to reconfigure particle systems, using these primitives, in a linear number of activation rounds in the worst case. In practice, our method exploits the geometry of the symmetric difference between input and output shape: it minimizes unnecessary disassembly and reassembly of the particle system when the symmetric difference between the initial and the target shapes is small. Furthermore, our reconfiguration algorithm moves the particles over as many parallel shortest paths as the problem instance allows.
The utilization of model checking has been suggested as a formal verification technique for analyzing critical systems. However, the primary challenge in applying to complex systems is state space explosion problem. To address this issue, bisimulation minimization has emerged as a prominent method for reducing the number of states in a labeled transition system, aiming to overcome the difficulties associated with the state space explosion problem. In the case of systems exhibiting stochastic behaviors, probabilistic bisimulation is employed to minimize a given model, obtaining its equivalent form with fewer states. Recently, various techniques have been introduced to decrease the time complexity of the iterative methods used to compute probabilistic bisimulation for stochastic systems that display nondeterministic behaviors. In this paper, we propose a new technique to partition the state space of a given probabilistic model to its bisimulation classes. This technique uses the PRISM program of a given model and constructs some small versions of the model to train a classifier. It then applies machine learning classification techniques to approximate the related partition. The resulting partition is used as an initial one for the standard bisimulation technique in order to reduce the running time of the method. The experimental results show that the approach can decrease significantly the running time compared to state-of-the-art tools.
Existing knowledge graph (KG) embedding models have primarily focused on static KGs. However, real-world KGs do not remain static, but rather evolve and grow in tandem with the development of KG applications. Consequently, new facts and previously unseen entities and relations continually emerge, necessitating an embedding model that can quickly learn and transfer new knowledge through growth. Motivated by this, we delve into an expanding field of KG embedding in this paper, i.e., lifelong KG embedding. We consider knowledge transfer and retention of the learning on growing snapshots of a KG without having to learn embeddings from scratch. The proposed model includes a masked KG autoencoder for embedding learning and update, with an embedding transfer strategy to inject the learned knowledge into the new entity and relation embeddings, and an embedding regularization method to avoid catastrophic forgetting. To investigate the impacts of different aspects of KG growth, we construct four datasets to evaluate the performance of lifelong KG embedding. Experimental results show that the proposed model outperforms the state-of-the-art inductive and lifelong embedding baselines.
With the explosive growth of information technology, multi-view graph data have become increasingly prevalent and valuable. Most existing multi-view clustering techniques either focus on the scenario of multiple graphs or multi-view attributes. In this paper, we propose a generic framework to cluster multi-view attributed graph data. Specifically, inspired by the success of contrastive learning, we propose multi-view contrastive graph clustering (MCGC) method to learn a consensus graph since the original graph could be noisy or incomplete and is not directly applicable. Our method composes of two key steps: we first filter out the undesirable high-frequency noise while preserving the graph geometric features via graph filtering and obtain a smooth representation of nodes; we then learn a consensus graph regularized by graph contrastive loss. Results on several benchmark datasets show the superiority of our method with respect to state-of-the-art approaches. In particular, our simple approach outperforms existing deep learning-based methods.
Recent advances in maximizing mutual information (MI) between the source and target have demonstrated its effectiveness in text generation. However, previous works paid little attention to modeling the backward network of MI (i.e., dependency from the target to the source), which is crucial to the tightness of the variational information maximization lower bound. In this paper, we propose Adversarial Mutual Information (AMI): a text generation framework which is formed as a novel saddle point (min-max) optimization aiming to identify joint interactions between the source and target. Within this framework, the forward and backward networks are able to iteratively promote or demote each other's generated instances by comparing the real and synthetic data distributions. We also develop a latent noise sampling strategy that leverages random variations at the high-level semantic space to enhance the long term dependency in the generation process. Extensive experiments based on different text generation tasks demonstrate that the proposed AMI framework can significantly outperform several strong baselines, and we also show that AMI has potential to lead to a tighter lower bound of maximum mutual information for the variational information maximization problem.
Deep learning methods for graphs achieve remarkable performance on many node-level and graph-level prediction tasks. However, despite the proliferation of the methods and their success, prevailing Graph Neural Networks (GNNs) neglect subgraphs, rendering subgraph prediction tasks challenging to tackle in many impactful applications. Further, subgraph prediction tasks present several unique challenges, because subgraphs can have non-trivial internal topology, but also carry a notion of position and external connectivity information relative to the underlying graph in which they exist. Here, we introduce SUB-GNN, a subgraph neural network to learn disentangled subgraph representations. In particular, we propose a novel subgraph routing mechanism that propagates neural messages between the subgraph's components and randomly sampled anchor patches from the underlying graph, yielding highly accurate subgraph representations. SUB-GNN specifies three channels, each designed to capture a distinct aspect of subgraph structure, and we provide empirical evidence that the channels encode their intended properties. We design a series of new synthetic and real-world subgraph datasets. Empirical results for subgraph classification on eight datasets show that SUB-GNN achieves considerable performance gains, outperforming strong baseline methods, including node-level and graph-level GNNs, by 12.4% over the strongest baseline. SUB-GNN performs exceptionally well on challenging biomedical datasets when subgraphs have complex topology and even comprise multiple disconnected components.
Graph Neural Networks (GNNs) have been shown to be effective models for different predictive tasks on graph-structured data. Recent work on their expressive power has focused on isomorphism tasks and countable feature spaces. We extend this theoretical framework to include continuous features - which occur regularly in real-world input domains and within the hidden layers of GNNs - and we demonstrate the requirement for multiple aggregation functions in this context. Accordingly, we propose Principal Neighbourhood Aggregation (PNA), a novel architecture combining multiple aggregators with degree-scalers (which generalize the sum aggregator). Finally, we compare the capacity of different models to capture and exploit the graph structure via a novel benchmark containing multiple tasks taken from classical graph theory, alongside existing benchmarks from real-world domains, all of which demonstrate the strength of our model. With this work, we hope to steer some of the GNN research towards new aggregation methods which we believe are essential in the search for powerful and robust models.
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