Ensemble smoothers for inference of hidden states and parameters in combinatorial regulatory model

2020 ◽  
Vol 357 (5) ◽  
pp. 2916-2933
Author(s):  
Takanori Hasegawa ◽  
Rui Yamaguchi ◽  
Atsushi Niida ◽  
Satoru Miyano ◽  
Seiya Imoto
2002 ◽  
Author(s):  
N. C. M. Theunissen ◽  
D. T. D. de Ridder ◽  
A. M. van Dulmen
Keyword(s):  
The Self ◽  

2019 ◽  
Vol 14 (2) ◽  
pp. 148-156
Author(s):  
Nighat Noureen ◽  
Sahar Fazal ◽  
Muhammad Abdul Qadir ◽  
Muhammad Tanvir Afzal

Background: Specific combinations of Histone Modifications (HMs) contributing towards histone code hypothesis lead to various biological functions. HMs combinations have been utilized by various studies to divide the genome into different regions. These study regions have been classified as chromatin states. Mostly Hidden Markov Model (HMM) based techniques have been utilized for this purpose. In case of chromatin studies, data from Next Generation Sequencing (NGS) platforms is being used. Chromatin states based on histone modification combinatorics are annotated by mapping them to functional regions of the genome. The number of states being predicted so far by the HMM tools have been justified biologically till now. Objective: The present study aimed at providing a computational scheme to identify the underlying hidden states in the data under consideration. </P><P> Methods: We proposed a computational scheme HCVS based on hierarchical clustering and visualization strategy in order to achieve the objective of study. Results: We tested our proposed scheme on a real data set of nine cell types comprising of nine chromatin marks. The approach successfully identified the state numbers for various possibilities. The results have been compared with one of the existing models as well which showed quite good correlation. Conclusion: The HCVS model not only helps in deciding the optimal state numbers for a particular data but it also justifies the results biologically thereby correlating the computational and biological aspects.


2021 ◽  
Vol 14 (5) ◽  
pp. 188
Author(s):  
Leunglung Chan ◽  
Song-Ping Zhu

This paper investigates the American option price in a two-state regime-switching model. The dynamics of underlying are driven by a Markov-modulated Geometric Wiener process. That means the interest rate, the appreciation rate, and the volatility of underlying rely on hidden states of the economy which can be interpreted in terms of Markov chains. By means of the homotopy analysis method, an explicit formula for pricing two-state regime-switching American options is presented.


2021 ◽  
Vol 13 (2) ◽  
pp. 164
Author(s):  
Chuyao Luo ◽  
Xutao Li ◽  
Yongliang Wen ◽  
Yunming Ye ◽  
Xiaofeng Zhang

The task of precipitation nowcasting is significant in the operational weather forecast. The radar echo map extrapolation plays a vital role in this task. Recently, deep learning techniques such as Convolutional Recurrent Neural Network (ConvRNN) models have been designed to solve the task. These models, albeit performing much better than conventional optical flow based approaches, suffer from a common problem of underestimating the high echo value parts. The drawback is fatal to precipitation nowcasting, as the parts often lead to heavy rains that may cause natural disasters. In this paper, we propose a novel interaction dual attention long short-term memory (IDA-LSTM) model to address the drawback. In the method, an interaction framework is developed for the ConvRNN unit to fully exploit the short-term context information by constructing a serial of coupled convolutions on the input and hidden states. Moreover, a dual attention mechanism on channels and positions is developed to recall the forgotten information in the long term. Comprehensive experiments have been conducted on CIKM AnalytiCup 2017 data sets, and the results show the effectiveness of the IDA-LSTM in addressing the underestimation drawback. The extrapolation performance of IDA-LSTM is superior to that of the state-of-the-art methods.


2020 ◽  
Vol 23 (3) ◽  
pp. 764-786
Author(s):  
Raoul R. Nigmatullin ◽  
Paolo Lino ◽  
Guido Maione

AbstractIn this paper, based on the “fuzzy” calculus covering the continuous range of operations between two couples of arithmetic operations (+, –) and (×, :), a new form of the fractional integral is proposed occupying an intermediate position between the integral and derivative of the first order. This new form of the fractional integral satisfies the C1 criterion according to the Ross classification. The new calculus is tightly related to the continuous values of the continuous spin S = 1 and can generalize the expression for the fractional values of the shifting discrete index. This calculus can be interpreted as the appearance of the hidden states corresponding to unobservable values of S = 1. Many well-known formulas can be generalized and receive a new extended interpretation. In particular, one can factorize any rectangle matrix and receive the “perfect” filtering formula that allows transforming any (deterministic or random) function to another arbitrary function and vice versa. This transformation can find unexpected applications in data transmission, cryptography and calibration of different gadgets and devices. One can also receive the hybrid (”centaur”) formula for the Fourier (F-) transformation unifying both expressions for the direct and inverse F-transformations in one mathematical unit. The generalized Dirichlet formula, which is obtained in the frame of the new calculus to allow selecting the desired resonance frequencies, will be useful in discrete signals processing, too. The basic formulas are tested numerically on mimic data.


Author(s):  
Yaping Li ◽  
Enrico Zio ◽  
Ershun Pan

Degradation is an unavoidable phenomenon in industrial systems. Hidden Markov models (HMMs) have been used for degradation modeling. In particular, segmental HMMs have been developed to model the explicit relationship between degradation signals and hidden states. However, existing segmental HMMs deal only with univariate cases, whereas in real systems, signals from various sensors are collected simultaneously, which makes it necessary to adapt the segmental HMMs to deal with multivariate processes. Also, to make full use of the information from the sensors, it is important to differentiate stable signals from deteriorating ones, but there is no good way for this, especially in multivariate processes. In this paper, the multivariate exponentially weighted moving average (MEWMA) control chart is employed to identify deteriorating multivariate signals. Specifically, the MEWMA statistic is used as a comprehensive indicator for differentiating multivariate observations. Likelihood Maximization is used to estimate the model parameters. To avoid underflow, the forward and backward probabilities are normalized. In order to assess degradation, joint probabilities are defined and derived. Further, the occurrence probability of each degradation state at the current time, as well as in the future, is derived. The Commercial Modular Aero-Propulsion System Simulation (C-MAPSS) dataset of NASA is employed for comparative analysis. In terms of degradation assessment and prediction, the proposed model performs very well in general. By sensitivity analysis, we show that in order to improve further the performance of the method, the weight of the chart should be set relatively small, whereas the method is not sensitive to the change of the in-control average run length (ARL).


Sign in / Sign up

Export Citation Format

Share Document