The purpose of a phase I dose-finding clinical trial is to investigate the toxicity profiles of various doses for a new drug and identify the maximum tolerated dose. Over the past three decades, various dose-finding designs have been proposed and discussed, including conventional model-based designs, new model-based designs using toxicity probability intervals, and rule-based designs. We present a simple decision framework that can generate several popular designs as special cases. We show that these designs share common elements under the framework, such as the same likelihood function, the use of loss functions, and the nature of the optimal decisions as Bayes rules. They differ mostly in the choice of the prior distributions. We present theoretical results on the decision framework and its link to specific and popular designs like mTPI, BOIN, and CRM. These results provide useful insights into the designs and their underlying assumptions, and convey information to help practitioners select an appropriate design.
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In recent work (Maierhofer & Huybrechs, 2022, Adv. Comput. Math.), the authors showed that least-squares oversampling can improve the convergence properties of collocation methods for boundary integral equations involving operators of certain pseudo-differential form. The underlying principle is that the discrete method approximates a Bubnov$-$Galerkin method in a suitable sense. In the present work, we extend this analysis to the case when the integral operator is perturbed by a compact operator $\mathcal{K}$ which is continuous as a map on Sobolev spaces on the boundary, $\mathcal{K}:H^{p}\rightarrow H^{q}$ for all $p,q\in\mathbb{R}$. This study is complicated by the fact that both the test and trial functions in the discrete Bubnov-Galerkin orthogonality conditions are modified over the unperturbed setting. Our analysis guarantees that previous results concerning optimal convergence rates and sufficient rates of oversampling are preserved in the more general case. Indeed, for the first time, this analysis provides a complete explanation of the advantages of least-squares oversampled collocation for boundary integral formulations of the Laplace equation on arbitrary smooth Jordan curves in 2D. Our theoretical results are shown to be in very good agreement with numerical experiments.
This paper addresses theory and applications of $\ell_p$-based Laplacian regularization in semi-supervised learning. The graph $p$-Laplacian for $p>2$ has been proposed recently as a replacement for the standard ($p=2$) graph Laplacian in semi-supervised learning problems with very few labels, where Laplacian learning is degenerate. In the first part of the paper we prove new discrete to continuum convergence results for $p$-Laplace problems on $k$-nearest neighbor ($k$-NN) graphs, which are more commonly used in practice than random geometric graphs. Our analysis shows that, on $k$-NN graphs, the $p$-Laplacian retains information about the data distribution as $p\to \infty$ and Lipschitz learning ($p=\infty$) is sensitive to the data distribution. This situation can be contrasted with random geometric graphs, where the $p$-Laplacian forgets the data distribution as $p\to \infty$. We also present a general framework for proving discrete to continuum convergence results in graph-based learning that only requires pointwise consistency and monotonicity. In the second part of the paper, we develop fast algorithms for solving the variational and game-theoretic $p$-Laplace equations on weighted graphs for $p>2$. We present several efficient and scalable algorithms for both formulations, and present numerical results on synthetic data indicating their convergence properties. Finally, we conduct extensive numerical experiments on the MNIST, FashionMNIST and EMNIST datasets that illustrate the effectiveness of the $p$-Laplacian formulation for semi-supervised learning with few labels. In particular, we find that Lipschitz learning ($p=\infty$) performs well with very few labels on $k$-NN graphs, which experimentally validates our theoretical findings that Lipschitz learning retains information about the data distribution (the unlabeled data) on $k$-NN graphs.
[Context and motivation] For automated driving systems, the operational context needs to be known in order to state guarantees on performance and safety. The operational design domain (ODD) is an abstraction of the operational context, and its definition is an integral part of the system development process. [Question / problem] There are still major uncertainties in how to clearly define and document the operational context in a diverse and distributed development environment such as the automotive industry. This case study investigates the challenges with context definitions for the development of perception functions that use machine learning for automated driving. [Principal ideas/results] Based on qualitative analysis of data from semi-structured interviews, the case study shows that there is a lack of standardisation for context definitions across the industry, ambiguities in the processes that lead to deriving the ODD, missing documentation of assumptions about the operational context, and a lack of involvement of function developers in the context definition. [Contribution] The results outline challenges experienced by an automotive supplier company when defining the operational context for systems using machine learning. Furthermore, the study collected ideas for potential solutions from the perspective of practitioners.
Neural networks have shown tremendous growth in recent years to solve numerous problems. Various types of neural networks have been introduced to deal with different types of problems. However, the main goal of any neural network is to transform the non-linearly separable input data into more linearly separable abstract features using a hierarchy of layers. These layers are combinations of linear and nonlinear functions. The most popular and common non-linearity layers are activation functions (AFs), such as Logistic Sigmoid, Tanh, ReLU, ELU, Swish and Mish. In this paper, a comprehensive overview and survey is presented for AFs in neural networks for deep learning. Different classes of AFs such as Logistic Sigmoid and Tanh based, ReLU based, ELU based, and Learning based are covered. Several characteristics of AFs such as output range, monotonicity, and smoothness are also pointed out. A performance comparison is also performed among 18 state-of-the-art AFs with different networks on different types of data. The insights of AFs are presented to benefit the researchers for doing further research and practitioners to select among different choices. The code used for experimental comparison is released at: \url{//github.com/shivram1987/ActivationFunctions}.
Graph Neural Networks (GNNs) have received considerable attention on graph-structured data learning for a wide variety of tasks. The well-designed propagation mechanism which has been demonstrated effective is the most fundamental part of GNNs. Although most of GNNs basically follow a message passing manner, litter effort has been made to discover and analyze their essential relations. In this paper, we establish a surprising connection between different propagation mechanisms with a unified optimization problem, showing that despite the proliferation of various GNNs, in fact, their proposed propagation mechanisms are the optimal solution optimizing a feature fitting function over a wide class of graph kernels with a graph regularization term. Our proposed unified optimization framework, summarizing the commonalities between several of the most representative GNNs, not only provides a macroscopic view on surveying the relations between different GNNs, but also further opens up new opportunities for flexibly designing new GNNs. With the proposed framework, we discover that existing works usually utilize naive graph convolutional kernels for feature fitting function, and we further develop two novel objective functions considering adjustable graph kernels showing low-pass or high-pass filtering capabilities respectively. Moreover, we provide the convergence proofs and expressive power comparisons for the proposed models. Extensive experiments on benchmark datasets clearly show that the proposed GNNs not only outperform the state-of-the-art methods but also have good ability to alleviate over-smoothing, and further verify the feasibility for designing GNNs with our unified optimization framework.
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.
There has been appreciable progress in unsupervised network representation learning (UNRL) approaches over graphs recently with flexible random-walk approaches, new optimization objectives and deep architectures. However, there is no common ground for systematic comparison of embeddings to understand their behavior for different graphs and tasks. In this paper we theoretically group different approaches under a unifying framework and empirically investigate the effectiveness of different network representation methods. In particular, we argue that most of the UNRL approaches either explicitly or implicit model and exploit context information of a node. Consequently, we propose a framework that casts a variety of approaches -- random walk based, matrix factorization and deep learning based -- into a unified context-based optimization function. We systematically group the methods based on their similarities and differences. We study the differences among these methods in detail which we later use to explain their performance differences (on downstream tasks). We conduct a large-scale empirical study considering 9 popular and recent UNRL techniques and 11 real-world datasets with varying structural properties and two common tasks -- node classification and link prediction. We find that there is no single method that is a clear winner and that the choice of a suitable method is dictated by certain properties of the embedding methods, task and structural properties of the underlying graph. In addition we also report the common pitfalls in evaluation of UNRL methods and come up with suggestions for experimental design and interpretation of results.
Clustering is one of the most fundamental and wide-spread techniques in exploratory data analysis. Yet, the basic approach to clustering has not really changed: a practitioner hand-picks a task-specific clustering loss to optimize and fit the given data to reveal the underlying cluster structure. Some types of losses---such as k-means, or its non-linear version: kernelized k-means (centroid based), and DBSCAN (density based)---are popular choices due to their good empirical performance on a range of applications. Although every so often the clustering output using these standard losses fails to reveal the underlying structure, and the practitioner has to custom-design their own variation. In this work we take an intrinsically different approach to clustering: rather than fitting a dataset to a specific clustering loss, we train a recurrent model that learns how to cluster. The model uses as training pairs examples of datasets (as input) and its corresponding cluster identities (as output). By providing multiple types of training datasets as inputs, our model has the ability to generalize well on unseen datasets (new clustering tasks). Our experiments reveal that by training on simple synthetically generated datasets or on existing real datasets, we can achieve better clustering performance on unseen real-world datasets when compared with standard benchmark clustering techniques. Our meta clustering model works well even for small datasets where the usual deep learning models tend to perform worse.
In two-phase image segmentation, convex relaxation has allowed global minimisers to be computed for a variety of data fitting terms. Many efficient approaches exist to compute a solution quickly. However, we consider whether the nature of the data fitting in this formulation allows for reasonable assumptions to be made about the solution that can improve the computational performance further. In particular, we employ a well known dual formulation of this problem and solve the corresponding equations in a restricted domain. We present experimental results that explore the dependence of the solution on this restriction and quantify imrovements in the computational performance. This approach can be extended to analogous methods simply and could provide an efficient alternative for problems of this type.
Knowledge graphs, on top of entities and their relationships, contain other important elements: literals. Literals encode interesting properties (e.g. the height) of entities that are not captured by links between entities alone. Most of the existing work on embedding (or latent feature) based knowledge graph analysis focuses mainly on the relations between entities. In this work, we study the effect of incorporating literal information into existing link prediction methods. Our approach, which we name LiteralE, is an extension that can be plugged into existing latent feature methods. LiteralE merges entity embeddings with their literal information using a learnable, parametrized function, such as a simple linear or nonlinear transformation, or a multilayer neural network. We extend several popular embedding models based on LiteralE and evaluate their performance on the task of link prediction. Despite its simplicity, LiteralE proves to be an effective way to incorporate literal information into existing embedding based methods, improving their performance on different standard datasets, which we augmented with their literals and provide as testbed for further research.
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