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9th International Conference on Software Defined Systems, SDS 2022

作者： Alja'afreh, Mohammad Obaidat, Muath Karime, Ali Alouneh, Sahel United Arab Emirates Computer Science- City University of New York United States The Royal Military College of Canada Department of Electrical and Computer Engineering Canada Al Ain University German Jordanian University Cybersecurity Program Jordan Jordan

ISBN: (纸本)9798350346718

The advancement of modern multimedia and data-intensive classes of applications demands the development of hardware that delivers better performance. Due to the evolution of 5G, Edge-Computing, the Internet of Things, Software-Defined networks, etc., the data produced by the devices such as sensors are increasing. A software-Defined network is a powerful paradigm that is capable of automating networking and cloud computing. Software-Defined Network has controllers, devices, and applications which produce a huge amount of data. The processing of data inside the device as well as between the devices needs a better hardware architecture with more cores to ensure speedy performance. The System-on-Chip approach alone will not be capable to handle this dense core comprised of hardware. We have to blend Network-on-Chip along with System-on-Chip to increase the potential to include more cores capable to handle more threads. Artificial Intelligence, a key enabler in next-generation devices is capable of producing a better architecture design with optimized performance. In this paper, we are discussing and endeavouring how System-on-Chip, Network-on-Chip, Software-Defined Networks, and Artificial Intelligence can be physically, logically, and contextually incorporated to deliver improved computation and networking outcomes. © 2022 IEEE.

关键词： Network-on-chip

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Impact of CLAHE-based image enhancement for diabetic retinopathy classification through deep learning 7

Impact of CLAHE-based image enhancement for diabetic retinop...

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7th International Conference on computer science and Computational Intelligence, CSCI 2022

作者： Hayati, Mira Muchtar, Kahlil Roslidar Maulina, Novi Syamsuddin, Irfan Elwirehardja, Gregorius Natanael Pardamean, Bens Department of Electrical and Computer Engineering Universitas Syiah Kuala Banda Aceh23111 Indonesia Universitas Syiah Kuala Banda Aceh23111 Indonesia Faculty of Medicine Universitas Syiah Kuala Banda Aceh23111 Indonesia Department of Computer and Networking Engineering Politeknik Negeri Ujung Pandang Makassar90245 Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta 11480 Indonesia Computer Science Department BINUS Graduate Program-Master of Computer Science Program Bina Nusantara University Jakarta 11480 Indonesia

Diabetic retinopathy (DR) is a type of diabetes mellitus that attacks the retina of the eye. DR will cause patients to experience blindness slowly. Generally, DR can be detected by using a special instrument called an ophthalmoscope to view the inside of the eyeball. However, in conditions where there is a very small difference between the normal image and the DR image, computer-based assistance is needed for maximizing image reading value. In this research, a method of image quality improvement will be carried out which will then be integrated with a classification algorithm based on deep learning. The results of image improvement using Contrast Limited Adaptive Histogram Equalization (CLAHE) shows that the average accuracy of the method on several models is very competitive, 91% for the VGG16 model, 95% for InceptionV3, and 97% for EfficientNet compared to the results original image which only has an accuracy of 87% for VGG16 model, 90% for InceptionV3 model, and 95% for EfficientNet. However, in ResNet34 better accuracy is obtained in the original image with an accuracy of 95% while in the CLAHE image the accuracy value is only 84%. The results of this comprehensive evaluation and recommendation of famous backbone networks can be useful in the computer-Aided diagnosis of diabetic retinopathy. © 2022 Elsevier B.V.. All rights reserved.

关键词： Image enhancement

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Rethinking Medical Report Generation: Disease Revealing Enhancement with Knowledge Graph

arXiv

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arXiv 2023年

作者： Wang, Yixin Lin, Zihao Dong, Haoyu Department of Bioengineering Stanford University StanfordCA United States Department of Computer Science Virginia Tech BlacksburgVA United States Department of Electrical and Computer Engineering Duke University DurhamNC United States

Knowledge Graph (KG) plays a crucial role in Medical Report Generation (MRG) because it reveals the relations among diseases and thus can be utilized to guide the generation process. However, constructing a comprehensive KG is labor-intensive and its applications on the MRG process are under-explored. In this study, we establish a complete KG on chest X-ray imaging that includes 137 types of diseases and abnormalities. Based on this KG, we find that the current MRG data sets exhibit a long-tailed problem in disease distribution. To mitigate this problem, we introduce a novel augmentation strategy that enhances the representation of disease types in the tail-end of the distribution. We further design a two-stage MRG approach, where a classifier is first trained to detect whether the input images exhibit any abnormalities. The classified images are then independently fed into two transformer-based generators, namely, "disease-specific generator" and "disease-free generator" to generate the corresponding reports. To enhance the clinical evaluation of whether the generated reports correctly describe the diseases appearing in the input image, we propose diverse sensitivity (DS), a new metric that checks whether generated diseases match ground truth and measures the diversity of all generated diseases. Results show that the proposed two-stage generation framework and augmentation strategies improve DS by a considerable margin, indicating a notable reduction in the long-tailed problem associated with underrepresented diseases. © 2023, CC BY.

关键词： Image enhancement

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Towards cross-modal causal structure and representation learning 2

Towards cross-modal causal structure and representation lear...

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2nd Machine Learning for Health Symposium, ML4H 2022

作者： Mao, Haiyi Liu, Hongfu Xiaotian Dou, Jason Benos, Panayiotis V. Joint CMU-Pitt PhD Program in Computational Biology University of Pittsburgh United States Michtom School of Computer Science Brandeis University United States Department of Electrical and Computer Engineering University of Pittsburgh United States Department of Epidemiology University of Florida United States

Does the SARS-CoV-2 virus cause patients' chest X-Rays ground-glass opacities? Does an IDH-mutation cause differences in patients' MRI images? Conventional causal discovery algorithms, although well developed to uncover the cause-effect relationships on structured data, cannot elucidate causal relations between unstructured images and structured scalar variables due to the complexity of the former. In this paper, we consider causal discovery between images and structured (scalar) variables. Specifically, we derive low dimensional image representations to analyze with structured variables. We propose a two-module amortized variational algorithm named Cross-Modal Variational Causal representation and structure Learning (CMCL). CMCL jointly learns identifiable representations given a set of independent structured variables and causal relations via formulating latent representations and structured variables into a direct acyclic graph. Moreover, we further enforce counterfactual invariance/variance onto representations. We demonstrate that CMCL outperforms other related methods on synthetic datasets and validate causal relations on semi-synthetic datasets by visualization. © 2022 P.N. Argaw, E. Healey & I.S. Kohane.

关键词： Coronavirus

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Accurate Segmentation for Pathological Lung Based on Integration of 3D Appearance and Surface Models

Accurate Segmentation for Pathological Lung Based on Integra...

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IEEE International Conference on Image Processing

作者： Ahmed Sharafeldeen Ahmed Alksas Mohammed Ghazal Maha Yaghi Adel Khelifi Ali Mahmoud Sohail Contractor Eric van Bogaert Ayman El-Baz Department of Bioengineering University of Louisville USA Electrical Computer and Biomedical Engineering Department Abu Dhabi University UAE Computer Science and Information Technology Department Abu Dhabi University UAE Department of Radiology University of Louisville USA

A novel unsupervised-based segmentation method is introduced to accurately delineate the lung region in 3D CT images based on appearance and geometric models. First, a probabilistic model that utilized a linear combination of Gaussian (LCG) tuned by a modified expectation maximization (EM) algorithm, is employed to model the density distribution of 3D CT chest volume. Subsequently, the initial labeling of the 3D CT chest volume is mapped to a probability distribution based on a 3D Markov Gibbs random field (MGRF) for refining. Finally, a geometric model is employed to refine the proposed segmentation by interpolating/connecting two points on its boundary with high curvature. The effectiveness of the proposed approach on 3D computed tomography (CT) chest scans of 26 patients diagnosed with different severity of coronavirus disease 2019 (COVID-19) is evaluated using four different metrics: overlap coefficient, Dice similarity coefficient (DSC), absolute lung volume difference (ALVD), and 95 th -percentile bidirectional Hausdorff distance (95 th HD). The proposed method achieved 94.89% ±2.39% , 97.36% ±1.27% , 1.79 ±1.89 , and 4.75 ±2.3 , respectively. Compared to three state-of-the-art methods based on deep learning approaches, the proposed method achieved superior performance in segmenting pathological lung tissues, demonstrating the promising of the proposed segmentation system.

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GranatumX:A Community-engaging, Modularized, and Flexible Webtool for Single-cell Data Analysis

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Genomics, Proteomics & Bioinformatics 2021年第3期19卷 452-460页

作者： David G.Garmire Xun Zhu Aravind Mantravadi Qianhui Huang Breck Yunits Yu Liu Thomas Wolfgruber Olivier Poirion Tianying Zhao Cédric Arisdakessian Stefan Stanojevic Lana X.Garmire Department of Electrical Engineering&Computer Science University of MichiganAnn ArborMI 48109USA Epidemiology Program University of Hawaii Cancer CenterHonoluluHI 96813USA Department of Biostatistics University of MichiganAnn ArborMI 48109USA Department of Computational Medicine and Bioinformatics University of MichiganAnn ArborMI 48105USA Molecular Biosciences and Bioengineering Graduate Program University of Hawaii at ManoaHonoluluHI 96822USA

We present GranatumX,a next-generation software environment for single-cell RNA sequencing(scRNA-seq)data *** is inspired by the interactive webtool *** enables biologists to access the latest scRNA-seq bioinformatics methods in a web-based graphical *** also offers software developers the opportunity to rapidly promote their own tools with others in customizable *** architecture of GranatumX allows for easy inclusion of plugin modules,named Gboxes,which wrap around bioinformatics tools written in various programming languages and on various *** can be run on the cloud or private servers and generate reproducible *** is a community-engaging,flexible,and evolving software ecosystem for scRNA-seq analysis,connecting developers with bench *** is freely accessible at http://***/granatumx/app.

关键词： Single-cell RNA sequencing Analysis Pipeline Webtool Module

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ADC-Less 3D-NAND Compute-in-Memory Architecture Using Margin Propagation

ADC-Less 3D-NAND Compute-in-Memory Architecture Using Margin...

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Midwest Symposium on Circuits and Systems (MWSCAS)

作者： Aswin Chowdary Undavalli Gert Cauwenberghs Arun Natarajan Shantanu Chakrabartty Aravind Nagulu Department of Electrical and Systems Engineering Washington University in St. Louis MO USA Department of Bioengineering University of California at San Diego CA USA School of Electrical Engineering and Computer Science Oregon State University Corvallis OR USA

Compute In Memory (CIM) has gained significant attention in recent years due to its potential to overcome the memory bottleneck in Von-Neumann computing architectures. While most CIM architectures use non-volatile memory elements in a NOR-based configuration, NAND-based configuration, and in particular, 3D-NAND flash memories are attractive because of their potential in achieving ultra-high memory density and ultra-low cost per bit storage. Unfortunately, the standard multiply-and-accumulate (MAC) CIM-paradigm can not be directly applied to NAND-flash memories. In this paper, we report a NAND-Flash-based CIM architecture by combining the conventional 3D-NAND flash with a Margin-Propagation (MP) based approximate computing technique. We show its application for implementing matrix-vector multipliers (MVMs) that do not require analog-to-digital converters (ADCs) for read-out. Using simulation results we show that this approach has the potential to provide a 100 x improvement in compute density, read speed, and computation efficiency compared to the current state-of-the-art.

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Microwave-Based Complementary Split-Ring Resonator for the Detection of Variations in Aqueous Media

Microwave-Based Complementary Split-Ring Resonator for the D...

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Microelectronics Technology and Devices (SBMicro)

作者： Reinaldo Velásquez Diego Tami Gilberto Medeiros-Ribeiro Cássio G. Rego Jhonattan C. Ramirez Graduate Program in Electrical Engineering UFMG Brazil Institute of Technological Sciences UNIFEI Brazil Department of Computer Science UFMG Brazil Department of Electronics Engineering UFMG Brazil

In this paper, we demonstrated a highly sensitive microwave-based resonator sensor capable of detecting variations in an aqueous medium of up to 0.94 mg/dL. In the presented device, the intrinsic resonant response (resonant amplitude, resonant frequency, and quality factor) is capacitively perturbed in reaction to the sample presence. To achieve higher sensitivity, the sample under testing generally is placed on the resonator surface, where the electric field is highly concentrated at the operating frequency. Thus, demonstrating excellent results in terms of sensitivity and reproducibility.

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A Computational Model of Children's Learning and Use of Probabilities Across Different Ages

arXiv

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arXiv 2023年

作者： Wang, Zilong Shultz, Thomas R. Nobandegani, Ardavan S. Integrated Program in Neuroscience McGill University Canada Department of Psychology School of Computer Science McGill University Canada Department of Psychology Department of Electrical & Computer Engineering McGill University Canada

Recent empirical work has shown that human children are adept at learning and reasoning with probabilities. Here, we model a recent experiment investigating the development of school-age children's non-symbolic probability reasoning ability using the Neural Probability Learner and Sampler (NPLS) system. We demonstrate that NPLS can accurately simulate children's probability judgments at different ages, tasks and difficulty levels to discriminate two probabilistic choices through accurate probability learning and sampling. An extension of NPLS using a skewed heuristic distribution can also model children's tendency to wrongly select the outcome with more favorable items but less likely to draw the favorable ones when the probabilistic choices are similar. We discuss the roles of two model parameters that can be adjusted to simulate the probability matching versus probability maximization phenomena in children, and why frequency biases children's probabilistic judgments. Copyright © 2023, The Authors. All rights reserved.

关键词： Probability distributions

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Uncertainty Quantification Using Subsampling for Assembly-Free Estimates of Genomic Distance and Phylogenetic Relationships 26th

Uncertainty Quantification Using Subsampling for Assembly-F...

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26th International Conference on Research in Computational Molecular Biology, RECOMB 2022

作者： Rachtman, Eleonora Sarmashghi, Shahab Bafna, Vineet Mirarab, Siavash Bioinformatics and Systems Biology Graduate Program UC San Diego La JollaCA United States Department of Electrical and Computer Engineering UC San Diego La JollaCA United States Department of Computer Science and Engineering UC San Diego La JollaCA United States

Computing the distance between two genomes, often without using alignments or even access to assembled sequences, is fundamental to many downstream analyses. © 2022, The Author(s), under exclusive license to Spri... 详细信息

ISBN: (纸本)9783031047480

关键词： Uncertainty analysis

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