Wavelet feature extraction and genetic algorithm for biomarker detection in colorectal cancer data

Biomarkers which predict patient’s survival can play an important role in medical diagnosis and treatment. How to select the significant biomarkers from hundreds of protein markers is a key step in survival analysis. In this paper a novel method is proposed to detect the prognostic biomarkers ofsurvival in colorectal cancer patients using wavelet analysis, genetic algorithm, and Bayes classifier. One dimensional discrete wavelet transform (DWT) is normally used to reduce the dimensionality of biomedical data. In this study one dimensional continuous wavelet transform (CWT) was proposed to extract the features of colorectal cancer data. One dimensional CWT has no ability to reduce dimensionality of data, but captures the missing features of DWT, and is complementary part of DWT. Genetic algorithm was performed on extracted wavelet coefficients to select the optimized features, using Bayes classifier to build its fitness function. The corresponding protein markers were located based on the position of optimized features. Kaplan-Meier curve and Cox regression model 2 were used to evaluate the performance of selected biomarkers. Experiments were conducted on colorectal cancer dataset and several significant biomarkers were detected. A new protein biomarker CD46 was found to significantly associate with survival time

An update on statistical boosting in biomedicine

Statistical boosting algorithms have triggered a lot of research during the last decade. They combine a powerful machine-learning approach with classical statistical modelling, offering various practical advantages like automated variable selection and implicit regularization of effect estimates. They are extremely flexible, as the underlying base-learners (regression functions defining the type of effect for the explanatory variables) can be combined with any kind of loss function (target function to be optimized, defining the type of regression setting). In this review article, we highlight the most recent methodological developments on statistical boosting regarding variable selection, functional regression and advanced time-to-event modelling. Additionally, we provide a short overview on relevant applications of statistical boosting in biomedicine

Parametrization and penalties in spline models with an application to survival analysis

In this paper we show how a simple parametrization, built from the definition of cubic splines, can aid in the implementation and interpretation of penalized spline models, whatever configuration of knots we choose to use. We call this parametrization value-first derivative parametrization. We perform Bayesian inference by exploring the natural link between quadratic penalties and Gaussian priors. However, a full Bayesian analysis seems feasible only for some penalty functionals. Alternatives include empirical Bayes methods involving model selection type criteria. The proposed methodology is illustrated by an application to survival analysis where the usual Cox model is extended to allow for time-varying regression coefficients

Prognosis of Bearing Acoustic Emission Signals Using Supervised Machine Learning

© 2017 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.Acoustic emission (AE) technique can be successfully utilized for condition monitoring of various machining and industrial processes. To keep machines function at optimal levels, fault prognosis model to predict the remaining useful life (RUL) of machine components is required. This model is used to analyze the output signals of a machine whilst in operation and accordingly helps to set an early alarm tool that reduces the untimely replacement of components and the wasteful machine downtime. Recent improvements indicate the drive on the way towards incorporation of prognosis and diagnosis machine learning techniques in future machine health management systems. With this in mind, this work employs three supervised machine learning techniques; support vector machine regression, multilayer artificial neural network model and gaussian process regression, to correlate AE features with corresponding natural wear of slow speed bearings throughout series of laboratory experiments. Analysis of signal parameters such as signal intensity estimator and root mean square was undertaken to discriminate individual types of early damage. It was concluded that neural networks model with back propagation learning algorithm has an advantage over the other models in estimating the RUL for slow speed bearings if the proper network structure is chosen and sufficient data is provided.Peer reviewe

Methods of Technical Prognostics Applicable to Embedded Systems

Hlavní cílem dizertace je poskytnutí uceleného pohledu na problematiku technické prognostiky, která nachází uplatnění v tzv. prediktivní údržbě založené na trvalém monitorování zařízení a odhadu úrovně degradace systému či jeho zbývající životnosti a to zejména v oblasti komplexních zařízení a strojů. V současnosti je technická diagnostika poměrně dobře zmapovaná a reálně nasazená na rozdíl od technické prognostiky, která je stále rozvíjejícím se oborem, který ovšem postrádá větší množství reálných aplikaci a navíc ne všechny metody jsou dostatečně přesné a aplikovatelné pro embedded systémy. Dizertační práce přináší přehled základních metod použitelných pro účely predikce zbývající užitné životnosti, jsou zde popsány metriky pomocí, kterých je možné jednotlivé přístupy porovnávat ať už z pohledu přesnosti, ale také i z pohledu výpočetní náročnosti. Jedno z dizertačních jader tvoří doporučení a postup pro výběr vhodné prognostické metody s ohledem na prognostická kritéria. Dalším dizertačním jádrem je představení tzv. částicového filtrovaní (particle filtering) vhodné pro model-based prognostiku s ověřením jejich implementace a porovnáním. Hlavní dizertační jádro reprezentuje případovou studii pro velmi aktuální téma prognostiky Li-Ion baterii s ohledem na trvalé monitorování. Případová studie demonstruje proces prognostiky založené na modelu a srovnává možné přístupy jednak pro odhad doby před vybitím baterie, ale také sleduje možné vlivy na degradaci baterie. Součástí práce je základní ověření modelu Li-Ion baterie a návrh prognostického procesu.The main aim of the thesis is to provide a comprehensive overview of technical prognosis, which is applied in the condition based maintenance, based on continuous device monitoring and remaining useful life estimation, especially in the field of complex equipment and machinery. Nowadays technical prognosis is still evolving discipline with limited number of real applications and is not so well developed as technical diagnostics, which is fairly well mapped and deployed in real systems. Thesis provides an overview of basic methods applicable for prediction of remaining useful life, metrics, which can help to compare the different approaches both in terms of accuracy and in terms of computational/deployment cost. One of the research cores consists of recommendations and guide for selecting the appropriate forecasting method with regard to the prognostic criteria. Second thesis research core provides description and applicability of particle filtering framework suitable for model-based forecasting. Verification of their implementation and comparison is provided. The main research topic of the thesis provides a case study for a very actual Li-Ion battery health monitoring and prognostics with respect to continuous monitoring. The case study demonstrates the prognostic process based on the model and compares the possible approaches for estimating both the runtime and capacity fade. Proposed methodology is verified on real measured data.