scholarly journals Representation and inference of size control laws by neural network aided point processes

2021 ◽  
Author(s):  
Atsushi Kamimura ◽  
Tetsuya J. Kobayashi
Keyword(s):  
Neural Network ◽  
Time Series ◽  
Cell Size ◽  
Point Processes ◽  
Time Series Data ◽  
Size Control ◽  
Data Representation ◽  
Series Data ◽  
Cell Physiology ◽  
Size Distributions

The regulation and coordination of cell growth and division is a long-standing problem in cell physiology. Recent single-cell measurements using microfluidic devices provide quantitative time-series data of various physiological parameters of cells. To clarify the regulatory laws and associated relevant parameters such as cell size, mathematical models have been constructed based on physical insights over the phenomena and tested by their capabilities to reproduce the measured data. However, such a conventional model construction by abduction faces a constant risk that we may overlook important parameters and factors especially when complicated time series data is concerned. In addition, comparing a model and data for validation is not trivial when we work on noisy multi-dimensional data. Using cell size control as an example, we demonstrate that this problem can be addressed by employing a neural network (NN) method, originally developed for history-dependent temporal point processes. The NN can effectively segregate history-dependent deterministic factors and unexplainable noise from a given data by flexibly representing functional forms of the deterministic relation and noise distribution. With this method, we represent and infer birth and division cell size distributions of bacteria and fission yeast. The known size control mechanisms such as adder model are revealed as the conditional dependence of the size distributions on history and their Markovian properties are shown sufficient. In addition, the inferred NN model provides a better data representation for the abductive model searching than descriptive statistics. Thus, the NN method can work as a powerful tool to process the noisy data for uncovering hidden dynamic laws.

Neural Network Techniques for Time Series Prediction: A Review

2019 ◽  
Vol 3 (3) ◽  
Author(s):  
Muhammad Faheem Mushtaq ◽  
Urooj Akram ◽  
Muhammad Aamir ◽  
Haseeb Ali ◽  
Muhammad Zulqarnain
Keyword(s):  
Neural Network ◽  
Neural Networks ◽  
Time Series ◽  
Time Series Data ◽  
Weather Prediction ◽  
Time Series Prediction ◽  
Series Data ◽  
Prediction Problem ◽  
Neural Network Models ◽  
Physical Time

It is important to predict a time series because many problems that are related to prediction such as health prediction problem, climate change prediction problem and weather prediction problem include a time component. To solve the time series prediction problem various techniques have been developed over many years to enhance the accuracy of forecasting. This paper presents a review of the prediction of physical time series applications using the neural network models. Neural Networks (NN) have appeared as an effective tool for forecasting of time series.  Moreover, to resolve the problems related to time series data, there is a need of network with single layer trainable weights that is Higher Order Neural Network (HONN) which can perform nonlinearity mapping of input-output. So, the developers are focusing on HONN that has been recently considered to develop the input representation spaces broadly. The HONN model has the ability of functional mapping which determined through some time series problems and it shows the more benefits as compared to conventional Artificial Neural Networks (ANN). The goal of this research is to present the reader awareness about HONN for physical time series prediction, to highlight some benefits and challenges using HONN.

scholarly journals Remaining Useful Life Prediction Using Temporal Convolution with Attention

AI ◽  
2021 ◽  
Vol 2 (1) ◽  
pp. 48-70
Author(s):  
Wei Ming Tan ◽  
T. Hui Teo
Keyword(s):  
Neural Network ◽  
Time Series ◽  
Time Series Data ◽  
Remaining Useful Life ◽  
Sensor Data ◽  
Series Data ◽  
Multiple Time ◽  
Data Set ◽  
Form Complex ◽  
Useful Life

Prognostic techniques attempt to predict the Remaining Useful Life (RUL) of a subsystem or a component. Such techniques often use sensor data which are periodically measured and recorded into a time series data set. Such multivariate data sets form complex and non-linear inter-dependencies through recorded time steps and between sensors. Many current existing algorithms for prognostic purposes starts to explore Deep Neural Network (DNN) and its effectiveness in the field. Although Deep Learning (DL) techniques outperform the traditional prognostic algorithms, the networks are generally complex to deploy or train. This paper proposes a Multi-variable Time Series (MTS) focused approach to prognostics that implements a lightweight Convolutional Neural Network (CNN) with attention mechanism. The convolution filters work to extract the abstract temporal patterns from the multiple time series, while the attention mechanisms review the information across the time axis and select the relevant information. The results suggest that the proposed method not only produces a superior accuracy of RUL estimation but it also trains many folds faster than the reported works. The superiority of deploying the network is also demonstrated on a lightweight hardware platform by not just being much compact, but also more efficient for the resource restricted environment.

scholarly journals Cell cycle time series gene expression data encoded as cyclic attractors in Hopfield systems

2017 ◽  
Author(s):  
Anthony Szedlak ◽  
Spencer Sims ◽  
Nicholas Smith ◽  
Giovanni Paternostro ◽  
Carlo Piermarocchi
Keyword(s):  
Neural Network ◽  
Gene Expression ◽  
Cell Cycle ◽  
Time Series ◽  
Time Series Data ◽  
Series Data ◽  
Data Sets ◽  
Expression Data ◽  
Time Series Gene Expression ◽  
Human Cervical Cancer

AbstractModern time series gene expression and other omics data sets have enabled unprecedented resolution of the dynamics of cellular processes such as cell cycle and response to pharmaceutical compounds. In anticipation of the proliferation of time series data sets in the near future, we use the Hopfield model, a recurrent neural network based on spin glasses, to model the dynamics of cell cycle in HeLa (human cervical cancer) and S. cerevisiae cells. We study some of the rich dynamical properties of these cyclic Hopfield systems, including the ability of populations of simulated cells to recreate experimental expression data and the effects of noise on the dynamics. Next, we use a genetic algorithm to identify sets of genes which, when selectively inhibited by local external fields representing gene silencing compounds such as kinase inhibitors, disrupt the encoded cell cycle. We find, for example, that inhibiting the set of four kinases BRD4, MAPK1, NEK7, and YES1 in HeLa cells causes simulated cells to accumulate in the M phase. Finally, we suggest possible improvements and extensions to our model.Author SummaryCell cycle – the process in which a parent cell replicates its DNA and divides into two daughter cells – is an upregulated process in many forms of cancer. Identifying gene inhibition targets to regulate cell cycle is important to the development of effective therapies. Although modern high throughput techniques offer unprecedented resolution of the molecular details of biological processes like cell cycle, analyzing the vast quantities of the resulting experimental data and extracting actionable information remains a formidable task. Here, we create a dynamical model of the process of cell cycle using the Hopfield model (a type of recurrent neural network) and gene expression data from human cervical cancer cells and yeast cells. We find that the model recreates the oscillations observed in experimental data. Tuning the level of noise (representing the inherent randomness in gene expression and regulation) to the “edge of chaos” is crucial for the proper behavior of the system. We then use this model to identify potential gene targets for disrupting the process of cell cycle. This method could be applied to other time series data sets and used to predict the effects of untested targeted perturbations.

scholarly journals Research on maintenance spare parts requirement prediction based on LSTM recurrent neural network

Open Physics ◽  
2021 ◽  
Vol 19 (1) ◽  
pp. 618-627
Author(s):  
Weixing Song ◽  
Jingjing Wu ◽  
Jianshe Kang ◽  
Jun Zhang
Keyword(s):  
Neural Network ◽  
Time Series ◽  
Recurrent Neural Network ◽  
Time Series Data ◽  
Short Term Memory ◽  
Spare Parts ◽  
Performance Comparison ◽  
Series Data ◽  
Generalized Regression Neural Network ◽  
Particle Swarm Algorithm

Abstract The aim of this study was to improve the low accuracy of equipment spare parts requirement predicting, which affects the quality and efficiency of maintenance support, based on the summary and analysis of the existing spare parts requirement predicting research. This article introduces the current latest popular long short-term memory (LSTM) algorithm which has the best effect on time series data processing to equipment spare parts requirement predicting, according to the time series characteristics of spare parts consumption data. A method for predicting the requirement for maintenance spare parts based on the LSTM recurrent neural network is proposed, and the network structure is designed in detail, the realization of network training and network prediction is given. The advantages of particle swarm algorithm are introduced to optimize the network parameters, and actual data of three types of equipment spare parts consumption are used for experiments. The performance comparison of predictive models such as BP neural network, generalized regression neural network, wavelet neural network, and squeeze-and-excitation network prove that the new method is effective and provides an effective method for scientifically predicting the requirement for maintenance spare parts and improving the quality of equipment maintenance.

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