scholarly journals Biophysical models of cis-regulation as interpretable neural networks

2019 ◽  
Author(s):  
Ammar Tareen ◽  
Justin B. Kinney
Keyword(s):  
Neural Networks ◽  
Gene Regulation ◽  
Deep Learning ◽  
Large Classes ◽  
Biophysical Models ◽  
Learning Techniques ◽  
Wide Range ◽  
Reporter Assays ◽  
Post Hoc ◽  
Learning Frameworks

AbstractThe adoption of deep learning techniques in genomics has been hindered by the difficulty of mechanistically interpreting the models that these techniques produce. In recent years, a variety of post-hoc attribution methods have been proposed for addressing this neural network interpretability problem in the context of gene regulation. Here we describe a complementary way of approaching this problem. Our strategy is based on the observation that two large classes of biophysical models of cis-regulatory mechanisms can be expressed as deep neural networks in which nodes and weights have explicit physiochemical interpretations. We also demonstrate how such biophysical networks can be rapidly inferred, using modern deep learning frameworks, from the data produced by certain types of massively parallel reporter assays (MPRAs). These results suggest a scalable strategy for using MPRAs to systematically characterize the biophysical basis of gene regulation in a wide range of biological contexts. They also highlight gene regulation as a promising venue for the development of scientifically interpretable approaches to deep learning.

scholarly journals Bengali License Plate Detection using Viola-Jones Algorithm

2019 ◽  
Vol 9 (2) ◽  
pp. 4058-4065
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Road Safety ◽  
License Plate ◽  
Learning Techniques ◽  
Wide Range ◽  
Previous Decade ◽  
Parking Management ◽  
License Plate Detection ◽  
Individual Classifier

Image classification has been a rapidly developing field over the previous decade, and the utilization of Convolutional Neural Networks (CNNs) and other deep learning techniques is developing rapidly. However, CNNs are compute-intensive. Another algorithm which was broadly utilized and keeps on being utilized is the Viola-Jones algorithm. Viola-Jones adopts an accumulation strategy. This means Viola-Jones utilizes a wide range of classifiers, each looking at a different part of the image. Every individual classifier is more fragile than the last classifier since it is taking in fewer data. At the point when the outcomes from every classifier are joined, be that as it may, they produce a solid classifier. In this paper, we would like to develop a model that will be able to detect the Bengali license plates of, using the Viola-Jones Algorithm with better precision. It can be utilized for various purposes like roadside help, road safety, parking management, etc

Bearing fault diagnosis using deep learning techniques coupled with handcrafted feature extraction: A comparative study

2020 ◽  
pp. 107754632092914
Author(s):  
Mohammed Alabsi ◽  
Yabin Liao ◽  
Ala-Addin Nabulsi
Keyword(s):  
Neural Networks ◽  
Feature Extraction ◽  
Deep Learning ◽  
Comparative Study ◽  
Domain Knowledge ◽  
Deep Neural Networks ◽  
Performance Limits ◽  
Data Repositories ◽  
Learning Techniques ◽  
Wide Range

Deep learning has seen tremendous growth over the past decade. It has set new performance limits for a wide range of applications, including computer vision, speech recognition, and machinery health monitoring. With the abundance of instrumentation data and the availability of high computational power, deep learning continues to prove itself as an efficient tool for the extraction of micropatterns from machinery big data repositories. This study presents a comparative study for feature extraction capabilities using stacked autoencoders considering the use of expert domain knowledge. Case Western Reserve University bearing dataset was used for the study, and a classifier was trained and tested to extract and visualize features from 12 different failure classes. Based on the raw data preprocessing, four different deep neural network structures were studied. Results indicated that integrating domain knowledge with deep learning techniques improved feature extraction capabilities and reduced the deep neural networks size and computational requirements without the need for exhaustive deep neural networks architecture tuning and modification.

scholarly journals Automated Transliteration of Late Egyptian Using Neural Networks: An Experiment in “Deep Learning”

2020 ◽  
Vol 28 ◽  
pp. 233-257
Author(s):  
Serge Rosmorduc
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Learning Techniques ◽  
Wide Range

We apply Deep Learning techniques to the task of automated transliteration of Late Egyptian. After a brief presentation of the technology used, we examine the result to highlight the capabilities of the system, which is able to deal with a wide range of problems, including grammatical and phraseological ones. We then proceed to extract signs values from what the system has automatically learnt.

scholarly journals Deep Learning Feature Extraction for Brain Tumor Characterization and Detection

2021 ◽  
Vol 16 (1) ◽  
pp. 1
Author(s):  
Otman Basir ◽  
Kalifa Shantta
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Brain Tumor ◽  
Extraction Methods ◽  
Daily Lives ◽  
Tumor Characterization ◽  
Learning Techniques ◽  
Wide Range ◽  
Attribute Extraction

Deep Learning is a growing field of artificial intelligence that has become an operative research topic in a wide range of disciplines. Today we are witnessing the tangible successes of Deep Learning in our daily lives in various applications, including education, manufacturing, transportation, healthcare, military, and automotive, etc.<strong> </strong>Deep Learning is a subfield of Machine Learning that stems from Artificial Neural Networks, where a cascade of layers is employed to progressively extract higher-level features from the raw input and make predictive guesses about new data. This paper will discuss the effect of attribute extraction profoundly inherent in training<strong> </strong>approaches such as Convolutional Neural Networks (CNN). Furthermore, the paper aims to offer a study on Deep Learning techniques and attribute extraction methods that have appeared in the last few years. As the demand increases, considerable research in the attribute extraction assignment has become even more instrumental. Brain tumor characterization and detection will be used as a case study to demonstrate Deep Learning CNN's ability to achieve effective representational learning and tumor characterization.

scholarly journals Emotional quantification of soundscapes by learning between samples

2020 ◽  
Vol 79 (41-42) ◽  
pp. 30387-30395
Author(s):  
Stavros Ntalampiras
Keyword(s):  
Machine Learning ◽  
Neural Networks ◽  
Deep Learning ◽  
State Of The Art ◽  
Emotional Responses ◽  
Machine Learning Techniques ◽  
Specific Domain ◽  
Learning Framework ◽  
Learning Techniques ◽  
Wide Range

Abstract Predicting the emotional responses of humans to soundscapes is a relatively recent field of research coming with a wide range of promising applications. This work presents the design of two convolutional neural networks, namely ArNet and ValNet, each one responsible for quantifying arousal and valence evoked by soundscapes. We build on the knowledge acquired from the application of traditional machine learning techniques on the specific domain, and design a suitable deep learning framework. Moreover, we propose the usage of artificially created mixed soundscapes, the distributions of which are located between the ones of the available samples, a process that increases the variance of the dataset leading to significantly better performance. The reported results outperform the state of the art on a soundscape dataset following Schafer’s standardized categorization considering both sound’s identity and the respective listening context.

scholarly journals A Generalization Performance Study Using Deep Learning Networks in Embedded Systems

Sensors ◽  
2021 ◽  
Vol 21 (4) ◽  
pp. 1031
Author(s):  
Joseba Gorospe ◽  
Rubén Mulero ◽  
Olatz Arbelaitz ◽  
Javier Muguerza ◽  
Miguel Ángel Antón
Keyword(s):  
Deep Learning ◽  
Embedded Systems ◽  
Embedded System ◽  
General Purpose ◽  
Learning Networks ◽  
Performance Study ◽  
Learning Techniques ◽  
Wide Range ◽  
Learning Architectures

Deep learning techniques are being increasingly used in the scientific community as a consequence of the high computational capacity of current systems and the increase in the amount of data available as a result of the digitalisation of society in general and the industrial world in particular. In addition, the immersion of the field of edge computing, which focuses on integrating artificial intelligence as close as possible to the client, makes it possible to implement systems that act in real time without the need to transfer all of the data to centralised servers. The combination of these two concepts can lead to systems with the capacity to make correct decisions and act based on them immediately and in situ. Despite this, the low capacity of embedded systems greatly hinders this integration, so the possibility of being able to integrate them into a wide range of micro-controllers can be a great advantage. This paper contributes with the generation of an environment based on Mbed OS and TensorFlow Lite to be embedded in any general purpose embedded system, allowing the introduction of deep learning architectures. The experiments herein prove that the proposed system is competitive if compared to other commercial systems.

scholarly journals Data augmentation for computed tomography angiography via synthetic image generation and neural domain adaptation

2020 ◽  
Vol 6 (1) ◽  
Author(s):  
Malte Seemann ◽  
Lennart Bargsten ◽  
Alexander Schlaefer
Keyword(s):  
Computed Tomography ◽  
Neural Networks ◽  
Deep Learning ◽  
Medical Imaging ◽  
Computed Tomography Angiography ◽  
Data Augmentation ◽  
Domain Adaptation ◽  
Synthetic Image ◽  
Wide Range ◽  
The Impact

AbstractDeep learning methods produce promising results when applied to a wide range of medical imaging tasks, including segmentation of artery lumen in computed tomography angiography (CTA) data. However, to perform sufficiently, neural networks have to be trained on large amounts of high quality annotated data. In the realm of medical imaging, annotations are not only quite scarce but also often not entirely reliable. To tackle both challenges, we developed a two-step approach for generating realistic synthetic CTA data for the purpose of data augmentation. In the first step moderately realistic images are generated in a purely numerical fashion. In the second step these images are improved by applying neural domain adaptation. We evaluated the impact of synthetic data on lumen segmentation via convolutional neural networks (CNNs) by comparing resulting performances. Improvements of up to 5% in terms of Dice coefficient and 20% for Hausdorff distance represent a proof of concept that the proposed augmentation procedure can be used to enhance deep learning-based segmentation for artery lumen in CTA images.

scholarly journals A Comparison of Deep Learning Techniques for Arterial Blood Pressure Prediction

2021 ◽  
Author(s):  
Annunziata Paviglianiti ◽  
Vincenzo Randazzo ◽  
Stefano Villata ◽  
Giansalvo Cirrincione ◽  
Eros Pasero
Keyword(s):  
Blood Pressure ◽  
Neural Networks ◽  
Deep Learning ◽  
Arterial Blood Pressure ◽  
Blood Pressure Measurement ◽  
National Standards ◽  
Detection Methods ◽  
Physiological Parameter ◽  
Arterial Blood ◽  
Learning Techniques

AbstractContinuous vital signal monitoring is becoming more relevant in preventing diseases that afflict a large part of the world’s population; for this reason, healthcare equipment should be easy to wear and simple to use. Non-intrusive and non-invasive detection methods are a basic requirement for wearable medical devices, especially when these are used in sports applications or by the elderly for self-monitoring. Arterial blood pressure (ABP) is an essential physiological parameter for health monitoring. Most blood pressure measurement devices determine the systolic and diastolic arterial blood pressure through the inflation and the deflation of a cuff. This technique is uncomfortable for the user and may result in anxiety, and consequently affect the blood pressure and its measurement. The purpose of this paper is the continuous measurement of the ABP through a cuffless, non-intrusive approach. The approach of this paper is based on deep learning techniques where several neural networks are used to infer ABP, starting from photoplethysmogram (PPG) and electrocardiogram (ECG) signals. The ABP was predicted first by utilizing only PPG and then by using both PPG and ECG. Convolutional neural networks (ResNet and WaveNet) and recurrent neural networks (LSTM) were compared and analyzed for the regression task. Results show that the use of the ECG has resulted in improved performance for every proposed configuration. The best performing configuration was obtained with a ResNet followed by three LSTM layers: this led to a mean absolute error (MAE) of 4.118 mmHg on and 2.228 mmHg on systolic and diastolic blood pressures, respectively. The results comply with the American National Standards of the Association for the Advancement of Medical Instrumentation. ECG, PPG, and ABP measurements were extracted from the MIMIC database, which contains clinical signal data reflecting real measurements. The results were validated on a custom dataset created at Neuronica Lab, Politecnico di Torino.

Multi-Mineral Segmentation of SEM Images Using Deep Learning Techniques

2021 ◽  
Author(s):  
Vladislav Vasilevich Alekseev ◽  
Denis Mihaylovich Orlov ◽  
Dmitry Anatolevich Koroteev
Keyword(s):  
Neural Networks ◽  
Deep Learning ◽  
Deep Neural Networks ◽  
Pore Space ◽  
Rock Physics ◽  
Sem Images ◽  
Digital Rock Physics ◽  
Learning Techniques ◽  
Digital Core ◽  
Non Destructive

Abstract The approaches of building and methods of using the digital core are currently developing rapidly. The use of these methods makes it possible to obtain petrophysical information by non-destructive methods quickly. Digital rock physics includes two main stages: constructing models and modeling various physical processes on the obtained models. Our work proposes using deep learning methods for mineral and pore space segmentation instead of classical methods such as threshold image processing. Deep neural networks have long been able to show their advantages in many areas of computer vision. This paper proposes and tests methods that help identify different minerals in images from a scanning electron microscope. We used images of rocks of the Achimov formation, which are arkoses, as samples. We tested various deep neural networks such as LinkNet, U-Net, ResUNet, and pix2pix and identified those that performed best in segmentation.

scholarly journals Image Analysis using Deep Learning Techniques

2019 ◽  
Vol 8 (6S3) ◽  
pp. 1385-1388
Keyword(s):  
Neural Networks ◽  
Image Analysis ◽  
Deep Learning ◽  
Convolutional Neural Networks ◽  
Learning Techniques ◽  
Massive Information ◽  
Comparative Examination ◽  
Hypothetical Structure ◽  
The Way

In late years, critical learning methodologies especially Convolutional Neural Networks have been utilized in different solicitations. CNN's have appeared to be a key capacity to ordinarily expel broad volumes of data from massive information. The uses of CNNs have inside and out ended up being useful especially in orchestrating ordinary pictures. Regardless, there have been essential obstacles in executing the CNNs in a restorative zone as a result of the nonattendance of genuine getting ready data. Consequently, general imaging benchmarks, for instance, Image Net have been conspicuously used in the restorative not too zone notwithstanding the way that they are perfect when appeared differently about the CNNs. In this paper, a comparative examination of LeNet, AlexNet, and GoogLeNet has been done. Starting there, the paper has proposed an improved hypothetical structure for requesting helpful life structures pictures using CNNs. In perspective on the proposed structure of the framework, the CNNs building are required to beat the previous three plans in requesting remedial pictures.

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