scholarly journals iEnhancer-EBLSTM: Identifying Enhancers and Strengths by Ensembles of Bidirectional Long Short-Term Memory

2021 ◽  
Vol 12 ◽  
Author(s):  
Kun Niu ◽  
Ximei Luo ◽  
Shumei Zhang ◽  
Zhixia Teng ◽  
Tianjiao Zhang ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Dna Sequences ◽  
Time Series Data ◽  
Short Term Memory ◽  
Critical Issue ◽  
Series Data ◽  
Sequence Information ◽  
Short Term ◽  
Term Memory ◽  
Long Short Term Memory

Enhancers are regulatory DNA sequences that could be bound by specific proteins named transcription factors (TFs). The interactions between enhancers and TFs regulate specific genes by increasing the target gene expression. Therefore, enhancer identification and classification have been a critical issue in the enhancer field. Unfortunately, so far there has been a lack of suitable methods to identify enhancers. Previous research has mainly focused on the features of the enhancer’s function and interactions, which ignores the sequence information. As we know, the recurrent neural network (RNN) and long short-term memory (LSTM) models are currently the most common methods for processing time series data. LSTM is more suitable than RNN to address the DNA sequence. In this paper, we take the advantages of LSTM to build a method named iEnhancer-EBLSTM to identify enhancers. iEnhancer-ensembles of bidirectional LSTM (EBLSTM) consists of two steps. In the first step, we extract subsequences by sliding a 3-mer window along the DNA sequence as features. Second, EBLSTM model is used to identify enhancers from the candidate input sequences. We use the dataset from the study of Quang H et al. as the benchmarks. The experimental results from the datasets demonstrate the efficiency of our proposed model.

scholarly journals VN-INDEX TREND PREDICTION USING LONG-SHORT TERM MEMORY NEURAL NETWORKS

2019 ◽  
Vol 17 (12.2) ◽  
pp. 61
Author(s):  
Nguyen Ngoc Tra ◽  
Ho Phuoc Tien ◽  
Nguyen Thanh Dat ◽  
Nguyen Ngoc Vu
Keyword(s):  
Time Series Data ◽  
Short Term Memory ◽  
Moving Average ◽  
Future Trend ◽  
Series Data ◽  
Short Term ◽  
Trend Prediction ◽  
Temporal Dependence ◽  
Term Memory ◽  
Long Short Term Memory

The paper attemps to forecast the future trend of Vietnam index (VN-index) by using long-short term memory (LSTM) networks. In particular, an LSTM-based neural network is employed to study the temporal dependence in time-series data of past and present VN index values. Empirical forecasting results show that LSTM-based stock trend prediction offers an accuracy of about 60% which outperforms moving-average-based prediction.

scholarly journals Long Short Term Memory Recurrent Network for Standard and Poor’s 500 Index Modelling

2018 ◽  
Vol 7 (4.15) ◽  
pp. 25 ◽  
Author(s):  
Said Jadid Abdulkadir ◽  
Hitham Alhussian ◽  
Muhammad Nazmi ◽  
Asim A Elsheikh
Keyword(s):  
Neural Network ◽  
Time Series ◽  
Recurrent Neural Network ◽  
Time Series Data ◽  
Short Term Memory ◽  
Series Data ◽  
Short Term ◽  
Term Memory ◽  
Long Short Term Memory

Forecasting time-series data are imperative especially when planning is required through modelling using uncertain knowledge of future events. Recurrent neural network models have been applied in the industry and outperform standard artificial neural networks in forecasting, but fail in long term time-series forecasting due to the vanishing gradient problem. This study offers a robust solution that can be implemented for long-term forecasting using a special architecture of recurrent neural network known as Long Short Term Memory (LSTM) model to overcome the vanishing gradient problem. LSTM is specially designed to avoid the long-term dependency problem as their default behavior. Empirical analysis is performed using quantitative forecasting metrics and comparative model performance on the forecasted outputs. An evaluation analysis is performed to validate that the LSTM model provides better forecasted outputs on Standard & Poor’s 500 Index (S&P 500) in terms of error metrics as compared to other forecasting models.  

scholarly journals Prediction of Rainfall Using Intensified LSTM Based Recurrent Neural Network with Weighted Linear Units

Atmosphere ◽  
2019 ◽  
Vol 10 (11) ◽  
pp. 668 ◽  
Author(s):  
S. Poornima ◽  
M. Pushpalatha
Keyword(s):  
Neural Network ◽  
Recurrent Neural Network ◽  
Time Series Data ◽  
Short Term Memory ◽  
Moving Average ◽  
Series Data ◽  
Short Term ◽  
Term Memory ◽  
Rainfall Prediction ◽  
Long Short Term Memory

Prediction of rainfall is one of the major concerns in the domain of meteorology. Several techniques have been formerly proposed to predict rainfall based on statistical analysis, machine learning and deep learning techniques. Prediction of time series data in meteorology can assist in decision-making processes carried out by organizations responsible for the prevention of disasters. This paper presents Intensified Long Short-Term Memory (Intensified LSTM) based Recurrent Neural Network (RNN) to predict rainfall. The neural network is trained and tested using a standard dataset of rainfall. The trained network will produce predicted attribute of rainfall. The parameters considered for the evaluation of the performance and the efficiency of the proposed rainfall prediction model are Root Mean Square Error (RMSE), accuracy, number of epochs, loss, and learning rate of the network. The results obtained are compared with Holt–Winters, Extreme Learning Machine (ELM), Autoregressive Integrated Moving Average (ARIMA), Recurrent Neural Network and Long Short-Term Memory models in order to exemplify the improvement in the ability to predict rainfall.

Deep Network based on Long Short-Term Memory for Time Series Prediction of Microclimate Data inside the Greenhouse

2020 ◽  
Vol 19 (02) ◽  
pp. 2050013
Author(s):  
Sawsan Morkos Gharghory
Keyword(s):  
Time Series ◽  
Relative Humidity ◽  
Time Series Data ◽  
Short Term Memory ◽  
Weather Data ◽  
Series Data ◽  
Short Term ◽  
Term Memory ◽  
Long Short Term Memory ◽  
Lstm Network

An enhanced architecture of recurrent neural network based on Long Short-Term Memory (LSTM) is suggested in this paper for predicting the microclimate inside the greenhouse through its time series data. The microclimate inside the greenhouse largely affected by the external weather variations and it has a great impact on the greenhouse crops and its production. Therefore, it is a massive importance to predict the microclimate inside greenhouse as a preceding stage for accurate design of a control system that could fulfill the requirements of suitable environment for the plants and crop managing. The LSTM network is trained and tested by the temperatures and relative humidity data measured inside the greenhouse utilizing the mathematical greenhouse model with the outside weather data over 27 days. To evaluate the prediction accuracy of the suggested LSTM network, different measurements, such as Root Mean Square Error (RMSE) and Mean Absolute Error (MAE), are calculated and compared to those of conventional networks in references. The simulation results of LSTM network for forecasting the temperature and relative humidity inside greenhouse outperform over those of the traditional methods. The prediction results of temperature and humidity inside greenhouse in terms of RMSE approximately are 0.16 and 0.62 and in terms of MAE are 0.11 and 0.4, respectively, for both of them.

scholarly journals Implementation of Long Short-Term Memory and Gated Recurrent Units on Grouped Time-Series Data to Predict Stock Prices Accurately

2021 ◽  
Author(s):  
Armin Lawi ◽  
Hendra Mesra ◽  
Supri Amir
Keyword(s):  
Time Series ◽  
Stock Prices ◽  
Stock Price ◽  
Time Series Data ◽  
Short Term Memory ◽  
Series Data ◽  
Percentage Error ◽  
Short Term ◽  
Term Memory ◽  
Long Short Term Memory

Abstract Stocks are an attractive investment option since they can generate large profits compared to other businesses. The movement of stock price patterns on the stock market is very dynamic; thus it requires accurate data modeling to forecast stock prices with a low error rate. Forecasting models using Deep Learning are believed to be able to accurately predict stock price movements using time-series data, especially the Long Short-Term Memory (LSTM) and Gated Recurrent Unit (GRU) algorithms. However, several previous implementation studies have not been able to obtain convincing accuracy results. This paper proposes the implementation of the forecasting method by classifying the movement of time-series data on company stock prices into three groups using LSTM and GRU. The accuracy of the built model is evaluated using loss functions of Rooted Mean Squared Error (RMSE) and Mean Absolute Percentage Error (MAPE). The results showed that the performance evaluation of both architectures is accurate in which GRU is always superior to LSTM. The highest validation for GRU was 98.73% (RMSE) and 98.54% (MAPE), while the LSTM validation was 98.26% (RMSE) and 97.71% (MAPE).

Deep machine learning for detection of acoustic wave reflections

2019 ◽  
Vol 19 (5) ◽  
pp. 1340-1350
Author(s):  
Mulugeta A Haile ◽  
Edward Zhu ◽  
Christopher Hsu ◽  
Natasha Bradley
Keyword(s):  
Neural Networks ◽  
Time Series ◽  
Acoustic Emission ◽  
Time Series Data ◽  
Short Term Memory ◽  
Series Data ◽  
Short Term ◽  
Term Memory ◽  
Propagating Waves ◽  
Long Short Term Memory

Acoustic emission signals are information rich and can be used to estimate the size and location of damage in structures. However, many existing algorithms may be deceived by indirectly propagated acoustic emission waves which are modulated by reflection boundaries within the structures. We propose two deep learning models to identify such waves such that existing algorithms for damage detection and localization may be used. The first approach uses long short-term memory recurrent neural networks to learn distinct patterns directly from the time-series data. In the second approach, we transform the time-series data into spectrograms and utilize convolutional neural networks to perform binary classification by leveraging spectro-temporal features. We achieved 80% classification accuracy using long short-term memory and near-perfect accuracy using convolutional neural networks on a dataset of acoustic emission signals generated by the Hsu-Nielsen sources. Both long short-term memory and convolutional neural network models were able to learn general and context-specific features of the direct and reflected acoustic emission waves. Once accurately identified, the indirectly propagating waves are filtered out while the directly propagating waves are used for source location using existing methods.

scholarly journals Car-Following Modeling Incorporating Driving Memory Based on Autoencoder and Long Short-Term Memory Neural Networks

2019 ◽  
Vol 11 (23) ◽  
pp. 6755
Author(s):  
Pengcheng Fan ◽  
Jingqiu Guo ◽  
Haifeng Zhao ◽  
Jasper S. Wijnands ◽  
Yibing Wang
Keyword(s):  
Time Series Data ◽  
Short Term Memory ◽  
Autonomous Driving ◽  
Behavior Modeling ◽  
Series Data ◽  
Short Term ◽  
Term Memory ◽  
Car Following ◽  
Long Short Term Memory ◽  
The Impact

Although a lot of work has been conducted on car-following modeling, model calibration and validation are still a great challenge, especially in the era of autonomous driving. Most challengingly, besides the immediate benefit incurred with a car-following action, a smart vehicle needs to learn to evaluate the long-term benefits and become foresighted in conducting car-following behaviors. Driving memory, which plays a significant role in car-following, has seldom been considered in current models. This paper focuses on the impact of driving memory on car-following behavior, particularly, historical driving memory represents certain types of driving regimes and drivers’ maneuver in coordination with the variety of driving regimes. An autoencoder was used to extract the main features underlying the time-series data in historical driving memory. Long short-term memory (LSTM) neural network model has been employed to investigate the relationship between driving memory and car-following behavior. The results show that velocity, relative velocity, instant perception time (IPT), and time gap are the most relevant parameters, while distance gap is insignificant. Furthermore, we compared the accuracy and robustness of three patterns including various driving memory information and span levels. This study contributes to bridging the gap between historical driving memory and car-following behavior modeling. The developed LSTM methodology has the potential to provide personalized warnings of dangerous car-following distance over the next second.

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