Browsing by Author "Huang, Hui-Lin"

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Motion Sickness Estimation System
(2012)
Lin, Chin-Teng
;
Tsai, Shu-Fang
;
Lee, Hua-Chin
;
Huang, Hui-Lin
;
Ho, Shinn-Ying
Motion sickness occurs when the brain receives conflicting sensory information from body, inner ear and eyes [1]. In some cases, a decreased ability to actively control the body's postural motion also causes motion sickness [2][3]. Many previous studies have indicated that motion sickness had negative effect on driving performance, and sometimes lead to serious traffic accidents due to self-control ability decline. Therefore motion sickness becomes a very important issue in our daily life especially considering driving safety. There are many attempts made by researchers to realize motion sickness, and detect motion sickness in the early stage. Although many motion-sickness-related biomarkers have been identified, estimating human motion sickness level (MSL) remains a challenge in operational environment. In our past studies, we found that features in the occipital area were highly correlated with the driver's driving performance. In this study, we designed a virtual-reality (VR) based driving environment with instinct-MSL-reporting mechanism. When a subject performed a driving task, his/her brain EEG was recorded simultaneously. From those EEG data, features associated with left motor brain area, parietal brain area and occipital midline brain area which predicted MSL were extracted by an optimal classifier implemented by an inheritable bi-objective combinatorial genetic algorithm (IBCGA) with support vector machine. Unlike traditional correlation-based method, IBCGA aims to select a small set of EEG features and maximize the prediction accuracy simultaneously in BCI applications. Once the optimal feature set predicting MSL is successfully found, a driver's cognitive state can be monitored.
Predicting and analyzing DNA-binding domains using a systematic approach to identifying a set of informative physicochemical and biochemical properties
(2011-02-15)
Huang, Hui-Lin
;
Lin, I-Che
;
Liou, Yi-Fan
;
Tsai, Chia-Ta
;
Hsu, Kai-Ti
Background: Existing methods of predicting DNA-binding proteins used valuable features of physicochemical properties to design support vector machine (SVM) based classifiers. Generally, selection of physicochemical properties and determination of their corresponding feature vectors rely mainly on known properties of binding mechanism and experience of designers. However, there exists a troublesome problem for designers that some different physicochemical properties have similar vectors of representing 20 amino acids and some closely related physicochemical properties have dissimilar vectors. Results: This study proposes a systematic approach (named Auto-IDPCPs) to automatically identify a set of physicochemical and biochemical properties in the AAindex database to design SVM-based classifiers for predicting and analyzing DNA-binding domains/proteins. Auto-IDPCPs consists of 1) clustering 531 amino acid indices in AAindex into 20 clusters using a fuzzy c-means algorithm, 2) utilizing an efficient genetic algorithm based optimization method IBCGA to select an informative feature set of size m to represent sequences, and 3) analyzing the selected features to identify related physicochemical properties which may affect the binding mechanism of DNA-binding domains/proteins. The proposed Auto-IDPCPs identified m=22 features of properties belonging to five clusters for predicting DNA-binding domains with a five-fold cross-validation accuracy of 87.12%, which is promising compared with the accuracy of 86.62% of the existing method PSSM-400. For predicting DNA-binding sequences, the accuracy of 75.50% was obtained using m=28 features, where PSSM-400 has an accuracy of 74.22%. Auto-IDPCPs and PSSM-400 have accuracies of 80.73% and 82.81%, respectively, applied to an independent test data set of DNA-binding domains. Some typical physicochemical properties discovered are hydrophobicity, secondary structure, charge, solvent accessibility, polarity, flexibility, normalized Van Der Waals volume, pK (pK-C, pK-N, pK-COOH and pK-a(RCOOH)), etc. Conclusions: The proposed approach Auto-IDPCPs would help designers to investigate informative physicochemical and biochemical properties by considering both prediction accuracy and analysis of binding mechanism simultaneously. The approach Auto-IDPCPs can be also applicable to predict and analyze other protein functions from sequences.