Comparison of dimension reduction-based logistic regression models for case-control genome-wide association study:principal components analysis vs.partial least squares

With recent advances in biotechnology, genome-wide association study （GWAS） has been widely used to identify genetic variants that underlie human complex diseases and traits. In case-control GWAS, typical statistical strategy is traditional logistical regression （LR） based on single-locus analysis. However, such a single-locus analysis leads to the well-known multiplicity problem, with a risk of inflating type I error and reducing power. Dimension reduction-based techniques, such as principal component-based logistic regression （PC-LR）, partial least squares-based logistic regression （PLS-LR）, have recently gained much attention in the analysis of high dimensional genomic data. However, the perfor- mance of these methods is still not clear, especially in GWAS. We conducted simulations and real data application to compare the type I error and power of PC-LR, PLS-LR and LR applicable to GWAS within a defined single nucleotide polymorphism （SNP） set region. We found that PC-LR and PLS can reasonably control type I error under null hypothesis. On contrast, LR, which is corrected by Bonferroni method, was more conserved in all simulation settings. In particular, we found that PC-LR and PLS-LR had comparable power and they both outperformed LR, especially when the causal SNP was in high linkage disequilibrium with genotyped ones and with a small effective size in simulation. Based on SNP set analysis, we applied all three methods to analyze non-small cell lung cancer GWAS data.

QUALITY CONTROL OF SEMICONDUCTOR PACKAGING BASED ON PRINCIPAL COMPONENTS ANALYSIS

5 critical quality characteristics must be controlled in the surface mount and wire-bond process in semiconductor packaging. And these characteristics are correlated with each other. So the principal components analysis（PCA） is used in the analysis of the sample data firstly. And then the process is controlled with hotelling T^2 control chart for the first several principal components which contain sufficient information. Furthermore, a software tool is developed for this kind of problems. And with sample data from a surface mounting device（SMD） process, it is demonstrated that the T^2 control chart with PCA gets the same conclusion as without PCA, but the problem is transformed from high-dimensional one to a lower dimensional one, i.e., from 5 to 2 in this demonstration.

Comparison of Principal Components Analysis,Independent Components Analysis and Common Components Analysis

The aim of this work is to describe and compare three exploratory chemometrical tools,principal components analysis,independent components analysis and common components analysis,the last one being a modification of the multi-block statistical method known as common components and specific weights analysis.The three methods were applied to a set of data to show the differences and similarities of the results obtained,highlighting their complementarity.

A Hybrid Optimization Approach of Single Point Incremental Sheet Forming of AISI 316L Stainless Steel Using Grey Relation Analysis Coupled with Principal Component Analysiss

We investigated the parametric optimization on incremental sheet forming of stainless steel using Grey Relational Analysis(GRA) coupled with Principal Component Analysis(PCA). AISI 316L stainless steel sheets were used to develop double wall angle pyramid with aid of tungsten carbide tool. GRA coupled with PCA was used to plan the experiment conditions. Control factors such as Tool Diameter(TD), Step Depth(SD), Bottom Wall Angle(BWA), Feed Rate(FR) and Spindle Speed(SS) on Top Wall Angle(TWA) and Top Wall Angle Surface Roughness(TWASR) have been studied. Wall angle increases with increasing tool diameter due to large contact area between tool and workpiece. As the step depth, feed rate and spindle speed increase,TWASR decreases with increasing tool diameter. As the step depth increasing, the hydrostatic stress is raised causing severe cracks in the deformed surface. Hence it was concluded that the proposed hybrid method was suitable for optimizing the factors and response.

Using deep neural networks coupled with principal component analysis for ore production forecasting at open-pit mines

Ore production is usually affected by multiple influencing inputs at open-pit mines.Nevertheless,the complex nonlinear relationships between these inputs and ore production remain unclear.This becomes even more challenging when training data(e.g.truck haulage information and weather conditions)are massive.In machine learning(ML)algorithms,deep neural network(DNN)is a superior method for processing nonlinear and massive data by adjusting the amount of neurons and hidden layers.This study adopted DNN to forecast ore production using truck haulage information and weather conditions at open-pit mines as training data.Before the prediction models were built,principal component analysis(PCA)was employed to reduce the data dimensionality and eliminate the multicollinearity among highly correlated input variables.To verify the superiority of DNN,three ANNs containing only one hidden layer and six traditional ML models were established as benchmark models.The DNN model with multiple hidden layers performed better than the ANN models with a single hidden layer.The DNN model outperformed the extensively applied benchmark models in predicting ore production.This can provide engineers and researchers with an accurate method to forecast ore production,which helps make sound budgetary decisions and mine planning at open-pit mines.

A Modified Principal Component Analysis Method for Honeycomb Sandwich Panel Debonding Recognition Based on Distributed Optical Fiber Sensing Signals

The safety and integrity requirements of aerospace composite structures necessitate real-time health monitoring throughout their service life.To this end,distributed optical fiber sensors utilizing back Rayleigh scattering have been extensively deployed in structural health monitoring due to their advantages,such as lightweight and ease of embedding.However,identifying the precise location of damage from the optical fiber signals remains a critical challenge.In this paper,a novel approach which namely Modified Sliding Window Principal Component Analysis(MSWPCA)was proposed to facilitate automatic damage identification and localization via distributed optical fiber sensors.The proposed method is able to extract signal characteristics interfered by measurement noise to improve the accuracy of damage detection.Specifically,we applied the MSWPCA method to monitor and analyze the debonding propagation process in honeycomb sandwich panel structures.Our findings demonstrate that the training model exhibits high precision in detecting the location and size of honeycomb debonding,thereby facilitating reliable and efficient online assessment of the structural health state.

Robust Principal Component Analysis Integrating Sparse and Low-Rank Priors

Principal Component Analysis (PCA) is a widely used technique for data analysis and dimensionality reduction, but its sensitivity to feature scale and outliers limits its applicability. Robust Principal Component Analysis (RPCA) addresses these limitations by decomposing data into a low-rank matrix capturing the underlying structure and a sparse matrix identifying outliers, enhancing robustness against noise and outliers. This paper introduces a novel RPCA variant, Robust PCA Integrating Sparse and Low-rank Priors (RPCA-SL). Each prior targets a specific aspect of the data’s underlying structure and their combination allows for a more nuanced and accurate separation of the main data components from outliers and noise. Then RPCA-SL is solved by employing a proximal gradient algorithm for improved anomaly detection and data decomposition. Experimental results on simulation and real data demonstrate significant advancements.

Analysis of the Employment Situation of Non Private Enterprises in Various Regions of China

In the past 30 years, Chinese enterprises have been a hot topic of discussion and concern among the general public in terms of economic and social status, ownership structure, business mechanism, and management level. Solving the problem of employment for the people is an important prerequisite for their peaceful living and work, as well as a prerequisite and foundation for building a harmonious society. The employment situation of private enterprises has always been of great concern to the outside world, and these two major jobs have always occupied an important position in the employment field of China that cannot be ignored. With the establishment of the market economy system, individual and private enterprises have become important components of the socialist economy, making significant contributions to economic development and social progress. The rapid development of China’s economy, on the one hand, is the embodiment of the superiority of China’s socialist market economic system, and on the other hand, it is the role of the tertiary industry and private enterprises in promoting the national economy. Since the 1990s, China’s private enterprises have become a new economic growth point for local and even national countries, and are one of the important ways to arrange employment and achieve social stability. This paper studies the employment of private enterprises and individuals from the perspective of statistics, extracts relevant data from China statistical Yearbook, uses the relevant knowledge of statistics to process the data, obtains the conclusion and puts forward relevant constructive suggestions.

Predicting the alloying element yield in a ladle furnace using principal component analysis and deep neural network

The composition control of molten steel is one of the main functions in the ladle furnace(LF)refining process.In this study,a feasible model was established to predict the alloying element yield using principal component analysis(PCA)and deep neural network(DNN).The PCA was used to eliminate collinearity and reduce the dimension of the input variables,and then the data processed by PCA were used to establish the DNN model.The prediction hit ratios for the Si element yield in the error ranges of±1%,±3%,and±5%are 54.0%,93.8%,and98.8%,respectively,whereas those of the Mn element yield in the error ranges of±1%,±2%,and±3%are 77.0%,96.3%,and 99.5%,respectively,in the PCA-DNN model.The results demonstrate that the PCA-DNN model performs better than the known models,such as the reference heat method,multiple linear regression,modified backpropagation,and DNN model.Meanwhile,the accurate prediction of the alloying element yield can greatly contribute to realizing a“narrow window”control of composition in molten steel.The construction of the prediction model for the element yield can also provide a reference for the development of an alloying control model in LF intelligent refining in the modern iron and steel industry.

A blast furnace fault monitoring algorithm with low false alarm rate:Ensemble of greedy dynamic principal component analysis-Gaussian mixture model

The large blast furnace is essential equipment in the process of iron and steel manufacturing. Due to the complex operation process and frequent fluctuations of variables, conventional monitoring methods often bring false alarms. To address the above problem, an ensemble of greedy dynamic principal component analysis-Gaussian mixture model(EGDPCA-GMM) is proposed in this paper. First, PCA-GMM is introduced to deal with the collinearity and the non-Gaussian distribution of blast furnace data.Second, in order to explain the dynamics of data, the greedy algorithm is used to determine the extended variables and their corresponding time lags, so as to avoid introducing unnecessary noise. Then the bagging ensemble is adopted to cooperate with greedy extension to eliminate the randomness brought by the greedy algorithm and further reduce the false alarm rate(FAR) of monitoring results. Finally, the algorithm is applied to the blast furnace of a large iron and steel group in South China to verify performance.Compared with the basic algorithms, the proposed method achieves lowest FAR, while keeping missed alarm rate(MAR) remain stable.

TOC estimation from logging data using principal component analysis

Total organic carbon(TOC)content is one of the most important parameters for characterizing the quality of source rocks and assessing the hydrocarbon-generating potential of shales.The Lucaogou Formation shale reservoirs in the Jimusaer Sag,Junggar Basin,NW China,is characterized by extremely complex lithology and a wide variety of mineral compositions with source rocks mainly consisting of carbonaceous mudstone and dolomitic mudstone.The logging responses of organic matter in the shale reservoirs is quite different from those in conventional reservoirs.Analyses show that the traditional△logR method is not suitable for evaluating the TOC content in the study area.Analysis of the sensitivity characteristics of TOC content to well logs reveals that the TOC content has good correlation with the separation degree of porosity logs.After a dimension reduction processing by the principal component analysis technology,the principal components are determined through correlation analysis of porosity logs.The results show that the TOC values obtained by the new method are in good agreement with that measured by core analysis.The average absolute error of the new method is only 0.555,much less when compared with 1.222 of using traditional△logR method.The proposed method can be used to produce more accurate TOC estimates,thus providing a reliable basis for source rock mapping.

Ecophysiology and multivariate analysis for production of Tachigali vulgaris in Brazil:Influence of rainfall seasonality and fertilization

Studies on fertilization management of species native to the Amazon for energy plantations contribute to the diversity of species use and reduce biological risk due to the excessive use of clones or hybrids of Eucalyptus.This study evaluates the effect of precipitation seasonality and phosphorus and potassium fertilization on gas exchange in a Tachigali vulgaris plantation.Three levels of P(zero,65.2,130.4 kg ha^(-1))and three of K(zero,100.0,200.0 kg ha^(-1))were applied in a 3×3 factorial randomized block design.Gas exchange measurements were conducted in April and November 2018.In low rainfall,high irradiance period,photo synthetic rates were up to four times higher than in the high rainfall period,reaching 20.3μmol m^(-2)s^(-1)in the treatment with 130.4 g kg^(-1)of P and 100.0 g kg^(-1)of K.Factor analysis and principal component analysis reduced the initial eight gas exchange variables to two and three principal components in periods of high and low rainfall,respectively.The multivariate method used in this study readily identified variations in the variables as a function of rainfall,with high reliability in explaining the data set.

Mantle sources of Cenozoic volcanoes around the South China Sea revealed by geochemical and isotopic data using the principal component analysis

Principal component analysis(PCA)was employed to determine the implications of geochemical and isotopic data from Cenozoic volcanic activities in the Southeast Asian region,including China(South China Sea(SCS),Hainan Island,Fujian-Zhejiang coast,Taiwan Island),and parts of Vietnam and Thailand.We analyzed 15 trace element indicators and 5 isotopic indicators for 623 volcanic rock samples collected from the study region.Two principal components(PCs)were extracted by PCA based on the trace elements and Sr-Nd-Pb isotopic ratios,which probably indicate an enriched oceanic island basalt-type mantle plume and a depleted mid-ocean ridge basalt-type spreading ridge.The results show that the influence of the Hainan mantle plume on younger volcanic activities(<13 Ma)is stronger than that on older ones(>13 Ma)at the same location in the Southeast Asian region.PCA was employed to verify the mantle-plume-ridge interaction model of volcanic activities beneath the expansion center of SCS and refute the hypothesis that the tension of SCS is triggered by the Hainan plume.This study reveals the efficiency and applicability of PCA in discussing mantle sources of volcanic activities;thus,PCA is a suitable research method for analyzing geochemical data.

Integrated classification method of tight sandstone reservoir based on principal component analysise simulated annealing genetic algorithmefuzzy cluster means

In this research,an integrated classification method based on principal component analysis-simulated annealing genetic algorithm-fuzzy cluster means(PCA-SAGA-FCM)was proposed for the unsupervised classification of tight sandstone reservoirs which lack the prior information and core experiments.A variety of evaluation parameters were selected,including lithology characteristic parameters,poro-permeability quality characteristic parameters,engineering quality characteristic parameters,and pore structure characteristic parameters.The PCA was used to reduce the dimension of the evaluation pa-rameters,and the low-dimensional data was used as input.The unsupervised reservoir classification of tight sandstone reservoir was carried out by the SAGA-FCM,the characteristics of reservoir at different categories were analyzed and compared with the lithological profiles.The analysis results of numerical simulation and actual logging data show that:1)compared with FCM algorithm,SAGA-FCM has stronger stability and higher accuracy;2)the proposed method can cluster the reservoir flexibly and effectively according to the degree of membership;3)the results of reservoir integrated classification match well with the lithologic profle,which demonstrates the reliability of the classification method.

Wind turbine clutter mitigation using morphological component analysis with group sparsity

To address the problem that dynamic wind turbine clutter(WTC)significantly degrades the performance of weather radar,a WTC mitigation algorithm using morphological component analysis(MCA)with group sparsity is studied in this paper.The ground clutter is suppressed firstly to reduce the morphological compositions of radar echo.After that,the MCA algorithm is applied and the window used in the short-time Fourier transform(STFT)is optimized to lessen the spectrum leakage of WTC.Finally,the group sparsity structure of WTC in the STFT domain can be utilized to decrease the degrees of freedom in the solution,thus contributing to better estimation performance of weather signals.The effectiveness and feasibility of the proposed method are demonstrated by numerical simulations.

Rail Surface Defect Detection Based on Improved UPerNet and Connected Component Analysis

To guarantee the safety of railway operations,the swift detection of rail surface defects becomes imperative.Traditional methods of manual inspection and conventional nondestructive testing prove inefficient,especially when scaling to extensive railway networks.Moreover,the unpredictable and intricate nature of defect edge shapes further complicates detection efforts.Addressing these challenges,this paper introduces an enhanced Unified Perceptual Parsing for Scene Understanding Network(UPerNet)tailored for rail surface defect detection.Notably,the Swin Transformer Tiny version(Swin-T)network,underpinned by the Transformer architecture,is employed for adept feature extraction.This approach capitalizes on the global information present in the image and sidesteps the issue of inductive preference.The model’s efficiency is further amplified by the windowbased self-attention,which minimizes the model’s parameter count.We implement the cross-GPU synchronized batch normalization(SyncBN)for gradient optimization and integrate the Lovász-hinge loss function to leverage pixel dependency relationships.Experimental evaluations underscore the efficacy of our improved UPerNet,with results demonstrating Pixel Accuracy(PA)scores of 91.39%and 93.35%,Intersection over Union(IoU)values of 83.69%and 87.58%,Dice Coefficients of 91.12%and 93.38%,and Precision metrics of 90.85%and 93.41%across two distinct datasets.An increment in detection accuracy was discernible.For further practical applicability,we deploy semantic segmentation of rail surface defects,leveraging connected component processing techniques to distinguish varied defects within the same frame.By computing the actual defect length and area,our deep learning methodology presents results that offer intuitive insights for railway maintenance professionals.

Functional magnetic resonance imaging study of group independent components underpinning item responses to paranoid-depressive scale

BACKGROUND Our study expand upon a large body of evidence in the field of neuropsychiatric imaging with cognitive,affective and behavioral tasks,adapted for the functional magnetic resonance imaging(MRI)(fMRI)experimental environment.There is sufficient evidence that common networks underpin activations in task-based fMRI across different mental disorders.AIM To investigate whether there exist specific neural circuits which underpin differ-ential item responses to depressive,paranoid and neutral items(DN)in patients respectively with schizophrenia(SCZ)and major depressive disorder(MDD).METHODS 60 patients were recruited with SCZ and MDD.All patients have been scanned on 3T magnetic resonance tomography platform with functional MRI paradigm,comprised of block design,including blocks with items from diagnostic paranoid(DP),depression specific(DS)and DN from general interest scale.We performed a two-sample t-test between the two groups-SCZ patients and depressive patients.Our purpose was to observe different brain networks which were activated during a specific condition of the task,respectively DS,DP,DN.RESULTS Several significant results are demonstrated in the comparison between SCZ and depressive groups while performing this task.We identified one component that is task-related and independent of condition(shared between all three conditions),composed by regions within the temporal(right superior and middle temporal gyri),frontal(left middle and inferior frontal gyri)and limbic/salience system(right anterior insula).Another com-ponent is related to both diagnostic specific conditions(DS and DP)e.g.It is shared between DEP and SCZ,and includes frontal motor/language and parietal areas.One specific component is modulated preferentially by to the DP condition,and is related mainly to prefrontal regions,whereas other two components are significantly modulated with the DS condition and include clusters within the default mode network such as posterior cingulate and precuneus,several occipital areas,including lingual and fusiform gyrus,as well as parahippocampal gyrus.Finally,component 12 appeared to be unique for the neutral condition.In addition,there have been determined circuits across components,which are either common,or distinct in the preferential processing of the sub-scales of the task.CONCLUSION This study has delivers further evidence in support of the model of trans-disciplinary cross-validation in psychiatry.

Wireless Sensor Network-based Detection of Poisonous Gases Using Principal Component Analysis

This work utilizes a statistical approach of Principal Component Ana-lysis(PCA)towards the detection of Methane(CH_(4))-Carbon Monoxide(CO)Poi-soning occurring in coal mines,forestfires,drainage systems etc.where the CH_(4) and CO emissions are very high in closed buildings or confined spaces during oxi-dation processes.Both methane and carbon monoxide are highly toxic,colorless and odorless gases.Both of the gases have their own toxic levels to be detected.But during their combined presence,the toxicity of the either one goes unidentified may be due to their low levels which may lead to an explosion.By using PCA,the correlation of CO and CH_(4) data is carried out and by identifying the areas of high correlation(along the principal component axis)the explosion suppression action can be triggered earlier thus avoiding adverse effects of massive explosions.Wire-less Sensor Network is deployed and simulations are carried with heterogeneous sensors(Carbon Monoxide and Methane sensors)in NS-2 Mannasim framework.The rise in the value of CO even when CH_(4) is below the toxic level may become hazardous to the people around.Thus our proposed methodology will detect the combined presence of both the gases(CH_(4) and CO)and provide an early warning in order to avoid any human losses or toxic effects.

Water Quality Evaluation of Chapurson Valley in Hunza Nagar, Gilgit Baltistan, Pakistan, Based on Statistical Analysis and Water Quality Index

Water borne ailments are of serious public health concern in Gilgit Baltistan’s (GB) region of Pakistan. The pollution load on the glacio-fluvial streams and surface water resources of the Chapurson Valley in the Hunza Nagar area of the GB is increasing as a result of anthropogenic activities and tourism. The present study focuses on the public health quality of drinking water of Chapurson valley. The study addressed the fundamental drinking water quality criteria in order to understand the state of the public health in the valley. To ascertain the current status of physico-chemical, metals, and bacteriological parameters, 25 water samples were collected through deterministic sampling strategy and examined accordingly. The physico-chemical parameters of the water samples collected from the valley were found to meet the World Health Organization (WHO) guidelines of drinking water. The water samples showed a pattern of mean metal concentrations in order of Arsenic (As) > Lead (Pb) > Iron (Fe) > Zinc (Zn) > Copper (Cu) > Magnesium (Mg) > Calcium (Ca). As, Cu, Zn, Ca and Mg concentration were under the WHO guidelines range. However, results showed that Pb and Fe are present at much higher concentrations than recommended WHO guidelines. Similarly, the results of the bacteriological analysis indicate that the water samples are heavily contaminated with the organisms of public health importance (including total coliforms (TCC), total faecal coliforms (TFC) and total fecal streptococci (TFS) are more than 3 MPN/100mL). Three principal components, accounting for 48.44% of the total variance, were revealed using principal component analysis (PCA). Bacteriological parameters were shown to be the main determinants of the water quality as depicted by the PCA analysis. The dendrogram of Cluster analysis using the Ward’s method validated the same traits of the sampling locations that were found to be contaminated during geospatial analysis using the Inverse Distance Weight (IDW) method. Based on these findings, it is most likely that those anthropogenic activities and essentially the tourism results in pollution load from upstream channels. Metals may be released into surface and groundwater from a few underlying sources as a result of weathering and erosion. This study suggests that the valley water resources are more susceptible to bacteriological contamination and as such no water treatment facilities or protective measure have been taken to encounter the pollution load. People are drinking the contaminated water without questioning about the quality. It is recommended that the water resources of the valley should be monitored using standard protocol so as to protect not only the public health but to safe guard sustainable tourism in the valley.

Volatile Components and Antitumor Activity of Ganoderma lucidum Spore Oil and Its Molecular Distillation Components

[Objectives]To compare the effects of molecular distillation on the flavor and antitumor activity of Ganoderma lucidum spore oil.[Methods]G.lucidum spore oil was separated and purified by molecular distillation technology,and the volatile components of different components of molecular distillation were analyzed by gas chromatography-ion mobility spectrometry(GC-IMS)technology.Human liver carcinoma cells(HepG2),human breast cancer cells(MCF-7),and human cervical cancer cells(Hela)were selected as the tumor cell lines to be tested,and the cell viability was detected by the MTT assay.[Results]Molecular distillation effectively reduced small molecular substances produced by oil oxidation in G.lucidum spore oil,such as heptanal,octanal,linalool,hexanal,E-2-octanal,3-ethylpyridine,etc.Among the heavy components,the content of esters was relatively high,mainly including ethyl levulinate,ethyl crotonate,and amyl butyrate.The MTT cytotoxicity test indicated that G.lucidum spore oil and its molecular distillation components had certain inhibitory effects on the growth of three tumor cells,and G.lucidum spore oil crude oil had the most significant antitumor activity.G.lucidum spore oil crude oil,heavy component,and light component had the most significant antitumor activity on HepG2 cells,followed by MCF-7 cells,and the weakest antitumor activity on Hela cells.The quality of G.lucidum spore oil became higher after molecular distillation,and the rancid smell was reduced,and molecular distillation had little effect on the antitumor activity of G.lucidum spores.[Conclusions]Molecular distillation technology can be applied to the refining of G.lucidum spore oil to improve product quality.