scholarly journals A Raman Algorithm to Estimate Human Age From Protein Structural Variations in Autopsy Skin Samples: the Proteins’ Biological Clock

2020 ◽  
Author(s):  
Daisuke Miyamori ◽  
Takeshi Uemura ◽  
Wenliang Zhu ◽  
Kei Fujikawa ◽  
Satoshi Teramukai ◽  
...  
Keyword(s):  
Protein Folding ◽  
Age Estimation ◽  
Mean Squared Error ◽  
Pearson Correlation ◽  
Biological Clock ◽  
Estimation Method ◽  
Forensic Identification ◽  
Coefficient Of Determination ◽  
Raman Spectrometry ◽  
Skin Sample

Abstract The recent increase of the number of unidentified cadavers has become a serious problem in the world. As a simple and objective method for age estimation, we attempted to utilize Raman spectrometry for forensic identification. Raman spectroscopy is an optical-based vibrational spectroscopic technique that provides detailed information about molecular composition and structure. Building upon our previous proof-of-concept study, Raman spectra of abdominal skin sample were measured in 132 autopsy cases and protein-folding intensity ratio (RPF) was calculated. There was a strong negative correlation between age and RPF with a Pearson correlation coefficient r = 0.878. The results of cross validation suggested that Model 2 (the square of RPF) is the best model with lowest mean squared error (127.9) and highest coefficient of determination (0.743) among the four models. Our results indicate that the there is a high correlation between the age and RPF. The Raman biological clock of protein folding can be used as a simple and objective forensic age estimation method of unidentified cadavers.

scholarly journals A Raman algorithm to estimate human age from protein structural variations in autopsy skin samples: a protein biological clock

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Daisuke Miyamori ◽  
Takeshi Uemura ◽  
Wenliang Zhu ◽  
Kei Fujikawa ◽  
Takaaki Nakaya ◽  
...  
Keyword(s):  
Protein Folding ◽  
Age Estimation ◽  
Mean Squared Error ◽  
Pearson Correlation ◽  
Biological Clock ◽  
Estimation Method ◽  
Forensic Identification ◽  
Random Coil ◽  
Coefficient Of Determination ◽  
Skin Samples

AbstractThe recent increase of the number of unidentified cadavers has become a serious problem throughout the world. As a simple and objective method for age estimation, we attempted to utilize Raman spectrometry for forensic identification. Raman spectroscopy is an optical-based vibrational spectroscopic technique that provides detailed information regarding a sample’s molecular composition and structures. Building upon our previous proof-of-concept study, we measured the Raman spectra of abdominal skin samples from 132 autopsy cases and the protein-folding intensity ratio, RPF, defined as the ratio between the Raman signals from a random coil an α-helix. There was a strong negative correlation between age and RPF with a Pearson correlation coefficient of r = 0.878. Four models, based on linear (RPF), squared (RPF2), sex, and RPF by sex interaction terms, were examined. The results of cross validation suggested that the second model including linear and squared terms was the best model with the lowest root mean squared error (11.3 years of age) and the highest coefficient of determination (0.743). Our results indicate that the there was a high correlation between the age and RPF and the Raman biological clock of protein folding can be used as a simple and objective forensic age estimation method for unidentified cadavers.

scholarly journals Evaluation of Zenith Tropospheric Delay Derived from Ray-Traced VMF3 Product over the West African Region Using GNSS Observations

2021 ◽  
Vol 2021 ◽  
pp. 1-14
Author(s):  
Samuel Osah ◽  
Akwasi A. Acheampong ◽  
Collins Fosu ◽  
Isaac Dadzie
Keyword(s):  
West Africa ◽  
Mean Squared Error ◽  
Pearson Correlation ◽  
Coefficient Of Determination ◽  
Tropospheric Delay ◽  
International Gnss Service ◽  
African Region ◽  
Precipitable Water Vapour ◽  
Alternative Source ◽  
Zenith Tropospheric Delay

The growing demand for Global Navigation Satellite System (GNSS) technology has necessitated the establishment of a vast and ever-growing network of International GNSS Service (IGS) tracking stations worldwide. The IGS provides highly accurate and highly reliable daily time-series Zenith Tropospheric Delay (ZTD) products using data from the member sites towards the use of GNSS for precise geodetic, climatological, and meteorological applications. However, if for reasons like poor internet connectivity, equipment failure, and power outages, the IGS station is inaccessible or malfunctioning, and gaps are created in the data archive resulting in degrading the quality of the ZTD and precipitable water vapour (PWV) estimation. To address this challenge as a means of providing an alternative data source to improve the continuous availability of ZTD data and as a backup data in the event that the IGS site data are missing or unavailable in West Africa, this paper compares the sitewise operational Vienna Mapping Functions 3 (VMF3) ZTD product with the IGS final ZTD product over five IGS stations in West Africa. Eight different statistical evaluation metrics, such as the mean bias (MB), mean absolute error (MAE), root mean squared error (RMSE), Pearson correlation coefficient (r), coefficient of determination (r2), refined index of agreement (IAr), Nash–Sutcliffe coefficient of efficiency (NSE), and the fraction of prediction within a factor of two (FAC2), are employed to determine the degree of agreement between the VMF3 and IGS tropospheric products. The results show that the VMF3-ZTD product performed excellently and matches very well with the IGS final ZTD product with an average MB, MAE, RMSE, r, r2, NSE, IAr, and FAC2 of 0.38 cm, 0.87 cm, 1.11 cm, 0.988, 0.976, 0.967, 0.992, and 1.00 (100%), respectively. This result is an indication that the VMF3-ZTD product is accurate enough to be used as an alternative source of ZTD data to augment the IGS final ZTD product for positioning and meteorological applications in West Africa.

Machine learning and Grad-Cam based vascular aging assessment using photoplethysmogram (Preprint)

2021 ◽  
Author(s):  
Hangsik Shin
Keyword(s):  
Machine Learning ◽  
Correlation Coefficient ◽  
Age Estimation ◽  
Mean Squared Error ◽  
Mean Absolute Error ◽  
Absolute Error ◽  
Coefficient Of Determination ◽  
Vascular Aging ◽  
Squared Error ◽  
Vascular Age

BACKGROUND Arterial stiffness due to vascular aging is a major indicator for evaluating cardiovascular risk. OBJECTIVE In this study, we propose a method of estimating age by applying machine learning to photoplethysmogram for non-invasive vascular age assessment. METHODS The machine learning-based age estimation model that consists of three convolutional layers and two-layer fully connected layers, was developed using segmented photoplethysmogram by pulse from a total of 752 adults aged 19–87 years. The performance of the developed model was quantitatively evaluated using mean absolute error, root-mean-squared-error, Pearson’s correlation coefficient, coefficient of determination. The Grad-Cam was used to explain the contribution of photoplethysmogram waveform characteristic in vascular age estimation. RESULTS Mean absolute error of 8.03, root mean squared error of 9.96, 0.62 of correlation coefficient, and 0.38 of coefficient of determination were shown through 10-fold cross validation. Grad-Cam, used to determine the weight that the input signal contributes to the result, confirmed that the contribution to the age estimation of the photoplethysmogram segment was high around the systolic peak. CONCLUSIONS The machine learning-based vascular aging analysis method using the PPG waveform showed comparable or superior performance compared to previous studies without complex feature detection in evaluating vascular aging. CLINICALTRIAL 2015-0104

scholarly journals Machine learning assisted Cameriere method for dental age estimation

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Shihui Shen ◽  
Zihao Liu ◽  
Jian Wang ◽  
Linfeng Fan ◽  
Fang Ji ◽  
...  
Keyword(s):  
Machine Learning ◽  
Mean Square Error ◽  
Age Estimation ◽  
Estimation Method ◽  
Permanent Teeth ◽  
Coefficient Of Determination ◽  
Support Vector ◽  
Mean Square ◽  
Dental Age ◽  
Dental Age Estimation

Abstract Background Recently, the dental age estimation method developed by Cameriere has been widely recognized and accepted. Although machine learning (ML) methods can improve the accuracy of dental age estimation, no machine learning research exists on the use of the Cameriere dental age estimation method, making this research innovative and meaningful. Aim The purpose of this research is to use 7 lower left permanent teeth and three models [random forest (RF), support vector machine (SVM), and linear regression (LR)] based on the Cameriere method to predict children's dental age, and compare with the Cameriere age estimation. Subjects and methods This was a retrospective study that collected and analyzed orthopantomograms of 748 children (356 females and 392 males) aged 5–13 years. Data were randomly divided into training and test datasets in an 80–20% proportion for the ML algorithms. The procedure, starting with randomly creating new training and test datasets, was repeated 20 times. 7 permanent developing teeth on the left mandible (except wisdom teeth) were recorded using the Cameriere method. Then, the traditional Cameriere formula and three models (RF, SVM, and LR) were used to estimate the dental age. The age prediction accuracy was measured by five indicators: the coefficient of determination (R2), mean error (ME), root mean square error (RMSE), mean square error (MSE), and mean absolute error (MAE). Results The research showed that the ML models have better accuracy than the traditional Cameriere formula. The ME, MAE, MSE, and RMSE values of the SVM model (0.004, 0.489, 0.392, and 0.625, respectively) and the RF model (− 0.004, 0.495, 0.389, and 0.623, respectively) were lower with the highest accuracy. In contrast, the ME, MAE, MSE and RMSE of the European Cameriere formula were 0.592, 0.846, 0.755, and 0.869, respectively, and those of the Chinese Cameriere formula were 0.748, 0.812, 0.890 and 0.943, respectively. Conclusions Compared to the Cameriere formula, ML methods based on the Cameriere’s maturation stages were more accurate in estimating dental age. These results support the use of ML algorithms instead of the traditional Cameriere formula.

scholarly journals Wavelet discrete transform, ANFIS and linear regression for short-term time series prediction of air temperature

2017 ◽  
Vol 3 (2) ◽  
pp. 68 ◽  
Author(s):  
Devi Munandar
Keyword(s):  
Time Series ◽  
Linear Regression ◽  
Time Series Data ◽  
Mean Squared Error ◽  
Pearson Correlation ◽  
Time Series Prediction ◽  
Coefficient Of Determination ◽  
Series Data ◽  
Discrete Wavelet ◽  
Inference System

This paper investigates the ability of Discrete Wavelet Transform and Adaptive Network-Based Fuzzy Inference System in time-series data modeling of weather parameters. Plotting predicted data results on Linear Regression is used as the baseline of the statistical model. Data were tested in every 10 minutes interval on weather station of Bungus port in Padang, Indonesia. Mean absolute errors (MAE), the coefficient of determination (R2), Pearson correlation coefficient (r) and root mean squared error (RMSE) are used as performance indicators. The result of Plotting ANFIS data against linear regression using 1-input data is the optimal values combination of output predictions.

An Effective Cumulative Torsion Angles Model for Prediction of Protein Folding Rates

2020 ◽  
Vol 27 (4) ◽  
pp. 321-328 ◽  
Author(s):  
Yanru Li ◽  
Ying Zhang ◽  
Jun Lv
Keyword(s):  
Protein Folding ◽  
Size Structure ◽  
Conformational Space ◽  
Coefficient Of Determination ◽  
Folding Rate ◽  
Torsion Angles ◽  
Folding Rates ◽  
Protein Folding Rate ◽  
Optimal Set ◽  
Conformation Space

Background: Protein folding rate is mainly determined by the size of the conformational space to search, which in turn is dictated by factors such as size, structure and amino-acid sequence in a protein. It is important to integrate these factors effectively to form a more precisely description of conformation space. But there is no general paradigm to answer this question except some intuitions and empirical rules. Therefore, at the present stage, predictions of the folding rate can be improved through finding new factors, and some insights are given to the above question. Objective: Its purpose is to propose a new parameter that can describe the size of the conformational space to improve the prediction accuracy of protein folding rate. Method: Based on the optimal set of amino acids in a protein, an effective cumulative backbone torsion angles (CBTAeff) was proposed to describe the size of the conformational space. Linear regression model was used to predict protein folding rate with CBTAeff as a parameter. The degree of correlation was described by the coefficient of determination and the mean absolute error MAE between the predicted folding rates and experimental observations. Results: It achieved a high correlation (with the coefficient of determination of 0.70 and MAE of 1.88) between the logarithm of folding rates and the (CBTAeff)0.5 with experimental over 112 twoand multi-state folding proteins. Conclusion: The remarkable performance of our simplistic model demonstrates that CBTA based on optimal set was the major determinants of the conformation space of natural proteins.

Multi-AUV Aided Cooperative 3D-localization for Underwater Sensor Networks

2020 ◽  
Vol 13 (1) ◽  
pp. 80-90 ◽  
Author(s):  
Meiyan Zhang ◽  
Wenyu Cai
Keyword(s):  
Sensor Networks ◽  
Mean Squared Error ◽  
Autonomous Underwater Vehicles ◽  
Estimation Method ◽  
Location Estimation ◽  
Underwater Sensor Networks ◽  
Coverage Ratio ◽  
Minimum Mean Squared Error ◽  
3D Localization ◽  
Localization Scheme

Background: Effective 3D-localization in mobile underwater sensor networks is still an active research topic. Due to the sparse characteristic of underwater sensor networks, AUVs (Autonomous Underwater Vehicles) with precise positioning abilities will benefit cooperative localization. It has important significance to study accurate localization methods. Methods: In this paper, a cooperative and distributed 3D-localization algorithm for sparse underwater sensor networks is proposed. The proposed algorithm combines with the advantages of both recursive location estimation of reference nodes and the outstanding self-positioning ability of mobile AUV. Moreover, our design utilizes MMSE (Minimum Mean Squared Error) based recursive location estimation method in 2D horizontal plane projected from 3D region and then revises positions of un-localized sensor nodes through multiple measurements of Time of Arrival (ToA) with mobile AUVs. Results: Simulation results verify that the proposed cooperative 3D-localization scheme can improve performance in terms of localization coverage ratio, average localization error and localization confidence level. Conclusion: The research can improve localization accuracy and coverage ratio for whole underwater sensor networks.

scholarly journals How to improve infectious disease prediction by integrating environmental data: an application of a novel ensemble analysis strategy to predict HFMD

2021 ◽  
Vol 149 ◽  
Author(s):  
Junwen Tao ◽  
Yue Ma ◽  
Xuefei Zhuang ◽  
Qiang Lv ◽  
Yaqiong Liu ◽  
...  
Keyword(s):  
Variable Selection ◽  
Mean Squared Error ◽  
Moving Average ◽  
Dynamic Bayesian Networks ◽  
Environmental Data ◽  
Control Measures ◽  
Coefficient Of Determination ◽  
Percentage Error ◽  
Analysis Strategy ◽  
Ensemble Analysis

Abstract This study proposed a novel ensemble analysis strategy to improve hand, foot and mouth disease (HFMD) prediction by integrating environmental data. The approach began by establishing a vector autoregressive model (VAR). Then, a dynamic Bayesian networks (DBN) model was used for variable selection of environmental factors. Finally, a VAR model with constraints (CVAR) was established for predicting the incidence of HFMD in Chengdu city from 2011 to 2017. DBN showed that temperature was related to HFMD at lags 1 and 2. Humidity, wind speed, sunshine, PM10, SO2 and NO2 were related to HFMD at lag 2. Compared with the autoregressive integrated moving average model with external variables (ARIMAX), the CVAR model had a higher coefficient of determination (R2, average difference: + 2.11%; t = 6.2051, P = 0.0003 < 0.05), a lower root mean-squared error (−24.88%; t = −5.2898, P = 0.0007 < 0.05) and a lower mean absolute percentage error (−16.69%; t = −4.3647, P = 0.0024 < 0.05). The accuracy of predicting the time-series shape was 88.16% for the CVAR model and 86.41% for ARIMAX. The CVAR model performed better in terms of variable selection, model interpretation and prediction. Therefore, it could be used by health authorities to identify potential HFMD outbreaks and develop disease control measures.

scholarly journals Consistent Long-Term Monthly Coastal Wetland Vegetation Monitoring Using a Virtual Satellite Constellation

2021 ◽  
Vol 13 (3) ◽  
pp. 438
Author(s):  
Subrina Tahsin ◽  
Stephen C. Medeiros ◽  
Arvind Singh
Keyword(s):  
Vegetation Index ◽  
Coastal Wetland ◽  
Thermal Emission ◽  
Mean Squared Error ◽  
Wetland Vegetation ◽  
Coefficient Of Determination ◽  
Landsat 8 ◽  
Vegetation Monitoring ◽  
Time Space

Long-term monthly coastal wetland vegetation monitoring is the key to quantifying the effects of natural and anthropogenic events, such as severe storms, as well as assessing restoration efforts. Remote sensing data products such as Normalized Difference Vegetation Index (NDVI), alongside emerging data analysis techniques, have enabled broader investigations into their dynamics at monthly to decadal time scales. However, NDVI data suffer from cloud contamination making periods within the time series sparse and often unusable during meteorologically active seasons. This paper proposes a virtual constellation for NDVI consisting of the red and near-infrared bands of Landsat 8 Operational Land Imager, Sentinel-2A Multi-Spectral Instrument, and Advanced Spaceborne Thermal Emission and Reflection Radiometer. The virtual constellation uses time-space-spectrum relationships from 2014 to 2018 and a random forest to produce synthetic NDVI imagery rectified to Landsat 8 format. Over the sample coverage area near Apalachicola, Florida, USA, the synthetic NDVI showed good visual coherence with observed Landsat 8 NDVI. Comparisons between the synthetic and observed NDVI showed Root Mean Squared Error and Coefficient of Determination (R2) values of 0.0020 sr−1 and 0.88, respectively. The results suggest that the virtual constellation was able to mitigate NDVI data loss due to clouds and may have the potential to do the same for other data. The ability to participate in a virtual constellation for a useful end product such as NDVI adds value to existing satellite missions and provides economic justification for future projects.

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