scholarly journals A Deep Neural Network Architecture to Model Reference Evapotranspiration Using a Single Input Meteorological Parameter

2021 ◽  
Author(s):  
Sowmya Mangalath Ravindran ◽  
Santosh Kumar Moorakkal Bhaskaran ◽  
Sooraj Krishnan Nair Ambat
Keyword(s):  
Neural Network ◽  
Network Architecture ◽  
Deep Neural Network ◽  
Reference Evapotranspiration ◽  
Meteorological Parameter ◽  
Neural Network Architecture ◽  
Model Reference ◽  
Single Input

scholarly journals USE OF GENETIC ALGORITHM IN DEEP NEURAL NETWORKS CONFIGURATION FOR THE PURPOSES OF COMPUTER ATTACKS CLASSIFICATION

2020 ◽  
pp. 104-117
Author(s):  
O.S. Amosov ◽  
◽  
S.G. Amosova ◽  
D.S. Magola ◽  
◽  
...  
Keyword(s):  
Neural Network ◽  
Genetic Algorithm ◽  
Network Architecture ◽  
Deep Neural Network ◽  
Deep Neural Networks ◽  
Classification Problem ◽  
Neural Network Architecture ◽  
Computer Attacks ◽  
Neural Network Technology

The task of multiclass network classification of computer attacks is given. The applicability of deep neural network technology in problem solving has been considered. Deep neural network architecture was chosen based on the strategy of combining a set of convolution and recurrence LSTM layers. Op-timization of neural network parameters based on genetic algorithm is proposed. The presented results of modeling show the possibility of solving the network classification problem in real time.

scholarly journals Varmole: a biologically drop-connect deep neural network model for prioritizing disease risk variants and genes

2020 ◽  
Author(s):  
Nam D Nguyen ◽  
Ting Jin ◽  
Daifeng Wang
Keyword(s):  
Neural Network ◽  
Network Architecture ◽  
Deep Neural Network ◽  
Molecular Mechanisms ◽  
Genome Wide Association Study ◽  
Disease Risk ◽  
Supplementary Information ◽  
Neural Network Architecture ◽  
Risk Variants ◽  
Genome Wide

Abstract Summary Population studies such as genome-wide association study have identified a variety of genomic variants associated with human diseases. To further understand potential mechanisms of disease variants, recent statistical methods associate functional omic data (e.g. gene expression) with genotype and phenotype and link variants to individual genes. However, how to interpret molecular mechanisms from such associations, especially across omics, is still challenging. To address this problem, we developed an interpretable deep learning method, Varmole, to simultaneously reveal genomic functions and mechanisms while predicting phenotype from genotype. In particular, Varmole embeds multi-omic networks into a deep neural network architecture and prioritizes variants, genes and regulatory linkages via biological drop-connect without needing prior feature selections. Availability and implementation Varmole is available as a Python tool on GitHub at https://github.com/daifengwanglab/Varmole. Supplementary information Supplementary data are available at Bioinformatics online.

scholarly journals Interpretable deep neural network for cancer survival analysis by integrating genomic and clinical data

2019 ◽  
Vol 12 (S10) ◽  
Author(s):  
Jie Hao ◽  
Youngsoon Kim ◽  
Tejaswini Mallavarapu ◽  
Jung Hun Oh ◽  
Mingon Kang
Keyword(s):  
Neural Network ◽  
Survival Analysis ◽  
Cancer Patient ◽  
Clinical Data ◽  
Network Architecture ◽  
Deep Neural Network ◽  
Patient Survival ◽  
Biological Mechanisms ◽  
Neural Network Architecture ◽  
The Neural Network

Abstract Background Understanding the complex biological mechanisms of cancer patient survival using genomic and clinical data is vital, not only to develop new treatments for patients, but also to improve survival prediction. However, highly nonlinear and high-dimension, low-sample size (HDLSS) data cause computational challenges to applying conventional survival analysis. Results We propose a novel biologically interpretable pathway-based sparse deep neural network, named Cox-PASNet, which integrates high-dimensional gene expression data and clinical data on a simple neural network architecture for survival analysis. Cox-PASNet is biologically interpretable where nodes in the neural network correspond to biological genes and pathways, while capturing the nonlinear and hierarchical effects of biological pathways associated with cancer patient survival. We also propose a heuristic optimization solution to train Cox-PASNet with HDLSS data. Cox-PASNet was intensively evaluated by comparing the predictive performance of current state-of-the-art methods on glioblastoma multiforme (GBM) and ovarian serous cystadenocarcinoma (OV) cancer. In the experiments, Cox-PASNet showed out-performance, compared to the benchmarking methods. Moreover, the neural network architecture of Cox-PASNet was biologically interpreted, and several significant prognostic factors of genes and biological pathways were identified. Conclusions Cox-PASNet models biological mechanisms in the neural network by incorporating biological pathway databases and sparse coding. The neural network of Cox-PASNet can identify nonlinear and hierarchical associations of genomic and clinical data to cancer patient survival. The open-source code of Cox-PASNet in PyTorch implemented for training, evaluation, and model interpretation is available at: https://github.com/DataX-JieHao/Cox-PASNet.

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