scholarly journals Decoding P300 Variability using Convolutional Neural Networks

2019 ◽  
Author(s):  
Amelia J. Solon ◽  
Vernon J. Lawhern ◽  
Jonathan Touryan ◽  
Jonathan R. McDaniel ◽  
Anthony J. Ries ◽  
...  
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
Signal To Noise Ratio ◽  
Complex Data ◽  
Signal To Noise ◽  
Deep Convolutional Neural Networks ◽  
Feature Spaces ◽  
Using Data ◽  
Induced Changes ◽  
Electroencephalogram Eeg

AbstractDeep convolutional neural networks (CNN) have previously been shown to be useful tools for signal decoding and analysis in a variety of complex domains, such as image processing and speech recognition. By learning from large amounts of data, the representations encoded by these deep networks are often invariant to moderate changes in the underlying feature spaces. Recently, we proposed a CNN architecture that could be applied to electroencephalogram (EEG) decoding and analysis. In this article, we train our CNN model using data from prior experiments in order to later decode the P300 evoked response from an unseen, hold-out experiment. We analyze the CNN output as a function of the underlying variability in the P300 response and demonstrate that the CNN output is sensitive to the experiment-induced changes in the neural response. We then assess the utility of our approach as a means of improving the overall signal-to-noise ratio in the EEG record. Finally, we show an example of how CNN-based decoding can be applied to the analysis of complex data.

scholarly journals Cooperative Spectrum Sensing Based on Convolutional Neural Networks

2021 ◽  
Vol 11 (10) ◽  
pp. 4440
Author(s):  
Youheng Tan ◽  
Xiaojun Jing
Keyword(s):  
Neural Networks ◽  
Spectrum Sensing ◽  
Convolutional Neural Networks ◽  
Cooperative Spectrum Sensing ◽  
Signal To Noise Ratio ◽  
Majority Voting ◽  
Signal To Noise ◽  
Hidden Terminal ◽  
Simulation Results ◽  
Sensing Performance

Cooperative spectrum sensing (CSS) is an important topic due to its capacity to solve the issue of the hidden terminal. However, the sensing performance of CSS is still poor, especially in low signal-to-noise ratio (SNR) situations. In this paper, convolutional neural networks (CNN) are considered to extract the features of the observed signal and, as a consequence, improve the sensing performance. More specifically, a novel two-dimensional dataset of the received signal is established and three classical CNN (LeNet, AlexNet and VGG-16)-based CSS schemes are trained and analyzed on the proposed dataset. In addition, sensing performance comparisons are made between the proposed CNN-based CSS schemes and the AND, OR, majority voting-based CSS schemes. The simulation results state that the sensing accuracy of the proposed schemes is greatly improved and the network depth helps with this.

scholarly journals Genome annotation across species using deep convolutional neural networks

2020 ◽  
Vol 6 ◽  
pp. e278 ◽  
Author(s):  
Ghazaleh Khodabandelou ◽  
Etienne Routhier ◽  
Julien Mozziconacci
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
Functional Role ◽  
Genomic Sequences ◽  
Sequence Motifs ◽  
Deep Convolutional Neural Networks ◽  
Genome Wide ◽  
Associated Proteins ◽  
Using Data ◽  
Genome Annotations

Application of deep neural network is a rapidly expanding field now reaching many disciplines including genomics. In particular, convolutional neural networks have been exploited for identifying the functional role of short genomic sequences. These approaches rely on gathering large sets of sequences with known functional role, extracting those sequences from whole-genome-annotations. These sets are then split into learning, test and validation sets in order to train the networks. While the obtained networks perform well on validation sets, they often perform poorly when applied on whole genomes in which the ratio of positive over negative examples can be very different than in the training set. We here address this issue by assessing the genome-wide performance of networks trained with sets exhibiting different ratios of positive to negative examples. As a case study, we use sequences encompassing gene starts from the RefGene database as positive examples and random genomic sequences as negative examples. We then demonstrate that models trained using data from one organism can be used to predict gene-start sites in a related species, when using training sets providing good genome-wide performance. This cross-species application of convolutional neural networks provides a new way to annotate any genome from existing high-quality annotations in a related reference species. It also provides a way to determine whether the sequence motifs recognised by chromatin-associated proteins in different species are conserved or not.

scholarly journals Enhancing the signal-to-noise ratio and generating contrast for cryo-EM images with convolutional neural networks

IUCrJ ◽  
2020 ◽  
Vol 7 (6) ◽  
pp. 1142-1150
Author(s):  
Eugene Palovcak ◽  
Daniel Asarnow ◽  
Melody G. Campbell ◽  
Zanlin Yu ◽  
Yifan Cheng
Keyword(s):  
Neural Networks ◽  
Image Processing ◽  
Convolutional Neural Networks ◽  
Signal To Noise Ratio ◽  
Image Contrast ◽  
Signal To Noise ◽  
Pass Filter ◽  
Processing Pipeline ◽  
Low Pass ◽  
Noise Ratio

In cryogenic electron microscopy (cryo-EM) of radiation-sensitive biological samples, both the signal-to-noise ratio (SNR) and the contrast of images are critically important in the image-processing pipeline. Classic methods improve low-frequency image contrast experimentally, by imaging with high defocus, or computationally, by applying various types of low-pass filter. These contrast improvements typically come at the expense of the high-frequency SNR, which is suppressed by high-defocus imaging and removed by low-pass filtration. Recently, convolutional neural networks (CNNs) trained to denoise cryo-EM images have produced impressive gains in image contrast, but it is not clear how these algorithms affect the information content of the image. Here, a denoising CNN for cryo-EM images was implemented and a quantitative evaluation of SNR enhancement, induced bias and the effects of denoising on image processing and three-dimensional reconstructions was performed. The study suggests that besides improving the visual contrast of cryo-EM images, the enhanced SNR of denoised images may be used in other parts of the image-processing pipeline, such as classification and 3D alignment. These results lay the groundwork for the use of denoising CNNs in the cryo-EM image-processing pipeline beyond particle picking.

scholarly journals Baryon acoustic oscillations reconstruction using convolutional neural networks

2020 ◽  
Vol 501 (1) ◽  
pp. 1499-1510
Author(s):  
Tian-Xiang Mao ◽  
Jie Wang ◽  
Baojiu Li ◽  
Yan-Chuan Cai ◽  
Bridget Falck ◽  
...  
Keyword(s):  
Neural Networks ◽  
Convolutional Neural Networks ◽  
Large Scale ◽  
Initial Conditions ◽  
Signal To Noise Ratio ◽  
Fine Tuning ◽  
Reconstruction Method ◽  
Acoustic Oscillations ◽  
Deep Convolutional Neural Networks ◽  
Baryon Acoustic Oscillations

ABSTRACT We propose a new scheme to reconstruct the baryon acoustic oscillations (BAO) signal, which contains key cosmological information, based on deep convolutional neural networks (CNN). Trained with almost no fine tuning, the network can recover large-scale modes accurately in the test set: the correlation coefficient between the true and reconstructed initial conditions reaches $90{{\ \rm per\ cent}}$ at $k\le 0.2 \, h\mathrm{Mpc}^{-1}$, which can lead to significant improvements of the BAO signal-to-noise ratio down to $k\simeq 0.4\, h\mathrm{Mpc}^{-1}$. Since this new scheme is based on the configuration-space density field in sub-boxes, it is local and less affected by survey boundaries than the standard reconstruction method, as our tests confirm. We find that the network trained in one cosmology is able to reconstruct BAO peaks in the others, i.e. recovering information lost to non-linearity independent of cosmology. The accuracy of recovered BAO peak positions is far less than that caused by the difference in the cosmology models for training and testing, suggesting that different models can be distinguished efficiently in our scheme. It is very promising that our scheme provides a different new way to extract the cosmological information from the ongoing and future large galaxy surveys.

CNN-based Classification of Degraded Images

2020 ◽  
Vol 2020 (10) ◽  
pp. 28-1-28-7 ◽  
Author(s):  
Kazuki Endo ◽  
Masayuki Tanaka ◽  
Masatoshi Okutomi
Keyword(s):  
Neural Networks ◽  
Image Restoration ◽  
Image Classification ◽  
Convolutional Neural Networks ◽  
Deep Convolutional Neural Networks ◽  
Alternative Approach ◽  
Degraded Image ◽  
Degraded Images ◽  
Straightforward Approach

Classification of degraded images is very important in practice because images are usually degraded by compression, noise, blurring, etc. Nevertheless, most of the research in image classification only focuses on clean images without any degradation. Some papers have already proposed deep convolutional neural networks composed of an image restoration network and a classification network to classify degraded images. This paper proposes an alternative approach in which we use a degraded image and an additional degradation parameter for classification. The proposed classification network has two inputs which are the degraded image and the degradation parameter. The estimation network of degradation parameters is also incorporated if degradation parameters of degraded images are unknown. The experimental results showed that the proposed method outperforms a straightforward approach where the classification network is trained with degraded images only.

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