Strong demands for efficient deployment of Deep Learning (DL) applications prompt the rapid development of a rich DL ecosystem. To keep up with its fast advancement, it is crucial for DL frameworks to efficiently integrate a variety of optimized libraries and runtimes as their backends and generate the fastest possible executable by using them properly. However, current DL frameworks require significant manual effort to integrate diverse backends and often fail to deliver high performance. In this paper, we propose Collage, an automatic framework for integrating DL backends. Collage provides a backend registration interface that allows users to precisely specify the capability of various backends. By leveraging the specifications of available backends, Collage searches for an optimized backend placement for a given workload and execution environment. Our evaluation shows that Collage automatically integrates multiple backends together without manual intervention, and outperforms existing frameworks by 1.21x, 1.39x, 1.40x on two different NVIDIA GPUs and an Intel CPU respectively.

For Bayesian optimization (BO) on high-dimensional data with complex structure, neural network-based kernels for Gaussian processes (GPs) have been used to learn flexible surrogate functions by the high representation power of deep learning. However, existing methods train neural networks by maximizing the marginal likelihood, which do not directly improve the BO performance. In this paper, we propose a meta-learning method for BO with neural network-based kernels that minimizes the expected gap between the true optimum value and the best value found by BO. We model a policy, which takes the current evaluated data points as input and outputs the next data point to be evaluated, by a neural network, where neural network-based kernels, GPs, and mutual information-based acquisition functions are used as its layers. With our model, the neural network-based kernel is trained to be appropriate for the acquisition function by backpropagating the gap through the acquisition function and GP. Our model is trained by a reinforcement learning framework from multiple tasks. Since the neural network is shared across different tasks, we can gather knowledge on BO from multiple training tasks, and use the knowledge for unseen test tasks. In experiments using three text document datasets, we demonstrate that the proposed method achieves better BO performance than the existing methods.

Abstruse learning algorithms and complex datasets increasingly characterize modern clinical decision support systems (CDSS). As a result, clinicians cannot easily or rapidly scrutinize the CDSS recommendation when facing a difficult diagnosis or treatment decision in practice. Over-trust or under-trust are frequent. Prior research has explored supporting such assessments by explaining DST data inputs and algorithmic mechanisms. This paper explores a different approach: Providing precisely relevant, scientific evidence from biomedical literature. We present a proof-of-concept system, Clinical Evidence Engine, to demonstrate the technical and design feasibility of this approach across three domains (cardiovascular diseases, autism, cancer). Leveraging Clinical BioBERT, the system can effectively identify clinical trial reports based on lengthy clinical questions (e.g., "risks of catheter infection among adult patients in intensive care unit who require arterial catheters, if treated with povidone iodine-alcohol"). This capability enables the system to identify clinical trials relevant to diagnostic/treatment hypotheses -- a clinician's or a CDSS's. Further, Clinical Evidence Engine can identify key parts of a clinical trial abstract, including patient population (e.g., adult patients in intensive care unit who require arterial catheters), intervention (povidone iodine-alcohol), and outcome (risks of catheter infection). This capability opens up the possibility of enabling clinicians to 1) rapidly determine the match between a clinical trial and a clinical question, and 2) understand the result and contexts of the trial without extensive reading. We demonstrate this potential by illustrating two example use scenarios of the system. We discuss the idea of designing DST explanations not as specific to a DST or an algorithm, but as a domain-agnostic decision support infrastructure.

TorchXRayVision is an open source software library for working with chest X-ray datasets and deep learning models. It provides a common interface and common pre-processing chain for a wide set of publicly available chest X-ray datasets. In addition, a number of classification and representation learning models with different architectures, trained on different data combinations, are available through the library to serve as baselines or feature extractors.

In recent years, there has been increasing interest to incorporate attention into deep learning architectures for biomedical image segmentation. The modular design of attention mechanisms enables flexible integration into convolutional neural network architectures, such as the U-Net. Whether attention is appropriate to use, what type of attention to use, and where in the network to incorporate attention modules, are all important considerations that are currently overlooked. In this paper, we investigate the role of the Focal parameter in modulating attention, revealing a link between attention in loss functions and networks. By incorporating a Focal distance penalty term, we extend the Unified Focal loss framework to include boundary-based losses. Furthermore, we develop a simple and interpretable, dataset and model-specific heuristic to integrate the Focal parameter into the Squeeze-and-Excitation block and Attention Gate, achieving optimal performance with fewer number of attention modules on three well-validated biomedical imaging datasets, suggesting judicious use of attention modules results in better performance and efficiency.

The Dice similarity coefficient (DSC) is both a widely used metric and loss function for biomedical image segmentation due to its robustness to class imbalance. However, it is well known that the DSC loss is poorly calibrated, resulting in overconfident predictions that cannot be usefully interpreted in biomedical and clinical practice. Performance is often the only metric used to evaluate segmentations produced by deep neural networks, and calibration is often neglected. However, calibration is important for translation into biomedical and clinical practice, providing crucial contextual information to model predictions for interpretation by scientists and clinicians. In this study, we identify poor calibration as an emerging challenge of deep learning based biomedical image segmentation. We provide a simple yet effective extension of the DSC loss, named the DSC++ loss, that selectively modulates the penalty associated with overconfident, incorrect predictions. As a standalone loss function, the DSC++ loss achieves significantly improved calibration over the conventional DSC loss across five well-validated open-source biomedical imaging datasets. Similarly, we observe significantly improved when integrating the DSC++ loss into four DSC-based loss functions. Finally, we use softmax thresholding to illustrate that well calibrated outputs enable tailoring of precision-recall bias, an important post-processing technique to adapt the model predictions to suit the biomedical or clinical task. The DSC++ loss overcomes the major limitation of the DSC, providing a suitable loss function for training deep learning segmentation models for use in biomedical and clinical practice.

Causality detection draws plenty of attention in the field of Natural Language Processing and linguistics research. It has essential applications in information retrieval, event prediction, question answering, financial analysis, and market research. In this study, we explore several methods to identify and extract cause-effect pairs in financial documents using transformers. For this purpose, we propose an approach that combines POS tagging with the BIO scheme, which can be integrated with modern transformer models to address this challenge of identifying causality in a given text. Our best methodology achieves an F1-Score of 0.9551, and an Exact Match Score of 0.8777 on the blind test in the FinCausal-2021 Shared Task at the FinCausal 2021 Workshop.

With more deep learning techniques being introduced into the knowledge tracing domain, the interpretability issue of the knowledge tracing models has aroused researchers' attention. Our previous study(Lu et al. 2020) on building and interpreting the KT model mainly adopts the ASSISTment dataset(Feng, Heffernan, and Koedinger 2009),, whose size is relatively small. In this work, we perform the similar tasks but on a large and newly available dataset, called EdNet(Choi et al. 2020). The preliminary experiment results show the effectiveness of the interpreting techniques, while more questions and tasks are worthy to be further explored and accomplished.

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With representation learning,Deep learning must be major part of machine learning methods supported artificial neural networks . Deep learning models are supported artificial neural networks (ANN). Artificial Neural Networks (ANN) are computing systems. Artificial neuron are elementary units in a man-made Neural Network (ANN). Artificial neuron receives one or more inputs and sums them to supply an output.