20 research outputs found

    2022 Review of Data-Driven Plasma Science

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    Data-driven science and technology offer transformative tools and methods to science. This review article highlights the latest development and progress in the interdisciplinary field of data-driven plasma science (DDPS), i.e., plasma science whose progress is driven strongly by data and data analyses. Plasma is considered to be the most ubiquitous form of observable matter in the universe. Data associated with plasmas can, therefore, cover extremely large spatial and temporal scales, and often provide essential information for other scientific disciplines. Thanks to the latest technological developments, plasma experiments, observations, and computation now produce a large amount of data that can no longer be analyzed or interpreted manually. This trend now necessitates a highly sophisticated use of high-performance computers for data analyses, making artificial intelligence and machine learning vital components of DDPS. This article contains seven primary sections, in addition to the introduction and summary. Following an overview of fundamental data-driven science, five other sections cover widely studied topics of plasma science and technologies, i.e., basic plasma physics and laboratory experiments, magnetic confinement fusion, inertial confinement fusion and high-energy-density physics, space and astronomical plasmas, and plasma technologies for industrial and other applications. The final section before the summary discusses plasma-related databases that could significantly contribute to DDPS. Each primary section starts with a brief introduction to the topic, discusses the state-of-the-art developments in the use of data and/or data-scientific approaches, and presents the summary and outlook. Despite the recent impressive signs of progress, the DDPS is still in its infancy. This article attempts to offer a broad perspective on the development of this field and identify where further innovations are required

    GOPred: GO Molecular Function Prediction by Combined Classifiers

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    Functional protein annotation is an important matter for in vivo and in silico biology. Several computational methods have been proposed that make use of a wide range of features such as motifs, domains, homology, structure and physicochemical properties. There is no single method that performs best in all functional classification problems because information obtained using any of these features depends on the function to be assigned to the protein. In this study, we portray a novel approach that combines different methods to better represent protein function. First, we formulated the function annotation problem as a classification problem defined on 300 different Gene Ontology (GO) terms from molecular function aspect. We presented a method to form positive and negative training examples while taking into account the directed acyclic graph (DAG) structure and evidence codes of GO. We applied three different methods and their combinations. Results show that combining different methods improves prediction accuracy in most cases. The proposed method, GOPred, is available as an online computational annotation tool (http://kinaz.fen.bilkent.edu.tr/gopred)

    Automatic Cephalometric Landmark Detection on X-ray Images Using a Deep-Learning Method

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    Accurate automatic quantitative cephalometry are essential for orthodontics. However, manual labeling of cephalometric landmarks is tedious and subjective, which also must be performed by professional doctors. In recent years, deep learning has gained attention for its success in computer vision field. It has achieved large progress in resolving problems like image classification or image segmentation. In this paper, we propose a two-step method which can automatically detect cephalometric landmarks on skeletal X-ray images. First, we roughly extract a region of interest (ROI) patch for each landmark by registering the testing image to training images, which have annotated landmarks. Then, we utilize pre-trained networks with a backbone of ResNet50, which is a state-of-the-art convolutional neural network, to detect each landmark in each ROI patch. The network directly outputs the coordinates of the landmarks. We evaluate our method on two datasets: ISBI 2015 Grand Challenge in Dental X-ray Image Analysis and our own dataset provided by Shandong University. The experiments demonstrate that the proposed method can achieve satisfying results on both SDR (Successful Detection Rate) and SCR (Successful Classification Rate). However, the computational time issue remains to be improved in the future
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