Yu-Yen Ou

Publication Activity (10 Years)

Years Active: 2003-2024
Publications (10 Years): 25

Top Topics

Convolutional Neural Network

Protein Sequences

Top Venues

Briefings Bioinform.

Comput. Biol. Medicine

Comput. Biol. Chem.

Publications

Jui-Hsuan Lee, Eric Hsiao-Kuang Wu, Yu-Yen Ou, Yueh-Che Lee, Cheng-Hsun Lee, Chia-Ru Chung
Anti-Drugs Chatbot: Chinese BERT-Based Cognitive Intent Analysis. IEEE Trans. Comput. Soc. Syst. 11 (1) (2024)
Van-The Le, Muhammad-Shahid Malik, Yi-Hsuan Tseng, Yu-Cheng Lee, Cheng-I Huang, Yu-Yen Ou
DeepPLM_mCNN: An approach for enhancing ion channel and ion transporter recognition by multi-window CNN based on features from pre-trained language models. Comput. Biol. Chem. 110 (2024)
Quang-Thai Ho, Nguyen-Quoc-Khanh Le, Yu-Yen Ou
mCNN-ETC: identifying electron transporters and their functional families by using multiple windows scanning techniques in convolutional neural networks with evolutionary information of protein sequences. Briefings Bioinform. 23 (1) (2022)
Trinh-Trung-Duong Nguyen, Quang-Thai Ho, Nguyen-Quoc-Khanh Le, Van-Dinh Phan, Yu-Yen Ou
Use Chou's 5-Steps Rule With Different Word Embedding Types to Boost Performance of Electron Transport Protein Prediction Model. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (2) (2022)
Trinh-Trung-Duong Nguyen, The-Anh Tran, Nguyen-Quoc-Khanh Le, Dinh-Minh Pham, Yu-Yen Ou
An Extensive Examination of Discovering 5-Methylcytosine Sites in Genome-Wide DNA Promoters Using Machine Learning Based Approaches. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (1) (2022)
Syed Muazzam Ali Shah, Semmy Wellem Taju, Bongani Brian Dlamini, Yu-Yen Ou
DeepSIRT: A deep neural network for identification of sirtuin targets and their subcellular localizations. Comput. Biol. Chem. 93 (2021)
Syed Muazzam Ali Shah, Yu-Yen Ou
TRP-BERT: Discrimination of transient receptor potential (TRP) channels using contextual representations from deep bidirectional transformer based on BERT. Comput. Biol. Medicine 137 (2021)
Semmy Wellem Taju, Syed Muazzam Ali Shah, Yu-Yen Ou
ActTRANS: Functional classification in active transport proteins based on transfer learning and contextual representations. Comput. Biol. Chem. 93 (2021)
Syed Muazzam Ali Shah, Semmy Wellem Taju, Quang-Thai Ho, Trinh-Trung-Duong Nguyen, Yu-Yen Ou
GT-Finder: Classify the family of glucose transporters with pre-trained BERT language models. Comput. Biol. Medicine 131 (2021)
Nguyen-Quoc-Khanh Le, Quang-Thai Ho, Trinh-Trung-Duong Nguyen, Yu-Yen Ou
A transformer architecture based on BERT and 2D convolutional neural network to identify DNA enhancers from sequence information. Briefings Bioinform. 22 (5) (2021)
Quang-Thai Ho, Trinh-Trung-Duong Nguyen, Nguyen-Quoc-Khanh Le, Yu-Yen Ou
FAD-BERT: Improved prediction of FAD binding sites using pre-training of deep bidirectional transformers. Comput. Biol. Medicine 131 (2021)
Trinh-Trung-Duong Nguyen, Duc-Khanh Nguyen, Yu-Yen Ou
Addressing data imbalance problems in ligand-binding site prediction using a variational autoencoder and a convolutional neural network. Briefings Bioinform. 22 (6) (2021)
Trinh-Trung-Duong Nguyen, Nguyen-Quoc-Khanh Le, The-Anh Tran, Dinh-Minh Pham, Yu-Yen Ou
Incorporating a transfer learning technique with amino acid embeddings to efficiently predict N-linked glycosylation sites in ion channels. Comput. Biol. Medicine 130 (2021)
Nguyen-Quoc-Khanh Le, Quang-Thai Ho, Edward Kien Yee Yapp, Yu-Yen Ou, Hui-Yuan Yeh
DeepETC: A deep convolutional neural network architecture for investigating and classifying electron transport chain's complexes. Neurocomputing 375 (2020)
Eric Hsiao-Kuang Wu, Sung-En Chen, Jhao-Jhong Liu, Yu-Yen Ou, Min-Te Sun
A Self-Relevant CNN-SVM Model for Problem Classification in K-12 Question-Driven Learning. IEEE Access 8 (2020)
Eric Hsiao-Kuang Wu, Chun-Han Lin, Yu-Yen Ou, Chen-Zhong Liu, Wei-Kai Wang, Chi-Yun Chao
Advantages and Constraints of a Hybrid Model K-12 E-Learning Assistant Chatbot. IEEE Access 8 (2020)
Rosdyana Mangir Irawan Kusuma, Trang-Thi Ho, Wei-Chun Kao, Yu-Yen Ou, Kai-Lung Hua
Using Deep Learning Neural Networks and Candlestick Chart Representation to Predict Stock Market. CoRR (2019)
Nguyen-Quoc-Khanh Le, Quang-Thai Ho, Yu-Yen Ou
Using two-dimensional convolutional neural networks for identifying GTP binding sites in Rab proteins. J. Bioinform. Comput. Biol. 17 (1) (2019)
Semmy Wellem Taju, Yu-Yen Ou
DeepIon: Deep learning approach for classifying ion transporters and ion channels from membrane proteins. J. Comput. Chem. 40 (15) (2019)
Nguyen-Quoc-Khanh Le, Green Arther Sandag, Yu-Yen Ou
Incorporating post translational modification information for enhancing the predictive performance of membrane transport proteins. Comput. Biol. Chem. 77 (2018)
Semmy Wellem Taju, Trinh-Trung-Duong Nguyen, Nguyen-Quoc-Khanh Le, Rosdyana Mangir Irawan Kusuma, Yu-Yen Ou
DeepEfflux: a 2D convolutional neural network model for identifying families of efflux proteins in transporters. Bioinform. 34 (18) (2018)
Nguyen-Quoc-Khanh Le, Quang-Thai Ho, Yu-Yen Ou
Incorporating deep learning with convolutional neural networks and position specific scoring matrices for identifying electron transport proteins. J. Comput. Chem. 38 (23) (2017)
Nguyen-Quoc-Khanh Le, Yu-Yen Ou
Incorporating efficient radial basis function networks and significant amino acid pairs for predicting GTP binding sites in transport proteins. BMC Bioinform. 17 (S-19) (2016)
Nguyen-Quoc-Khanh Le, Yu-Yen Ou
Prediction of FAD binding sites in electron transport proteins according to efficient radial basis function networks and significant amino acid pairs. BMC Bioinform. 17 (2016)
Semmy Wellem Taju, Nguyen-Quoc-Khanh Le, Yu-Yen Ou
Using Deep Learning with Position Specific Scoring Matrices to Identify Efflux Proteins in Membrane and Transport Proteins. BIBE (2016)
M. Michael Gromiha, Yu-Yen Ou
Bioinformatics approaches for functional annotation of membrane proteins. Briefings Bioinform. 15 (2) (2014)
Shu-An Chen, Yu-Yen Ou, Tzong-Yi Lee, M. Michael Gromiha
Prediction of transporter targets using efficient RBF networks with PSSM profiles and biochemical properties. Bioinform. 27 (15) (2011)
Shu-An Chen, Yu-Yen Ou, M. Michael Gromiha
-Barrel Transmembrane Proteins Using RBF Networks. ICIC (1) (2010)
Shu-An Chen, Tzong-Yi Lee, Yu-Yen Ou
Incorporating significant amino acid pairs to identify O-linked glycosylation sites on transmembrane proteins and non-transmembrane proteins. BMC Bioinform. 11 (2010)
Yu-Yen Ou, Shu-An Chen, M. Michael Gromiha
Prediction of membrane spanning segments and topology in beta-barrel membrane proteins at better accuracy. J. Comput. Chem. 31 (1) (2010)
Yu-Yen Ou, Shu-An Chen
Using Efficient RBF Networks to Classify Transport Proteins Based on PSSM Profiles and Biochemical Properties. IWANN (1) (2009)
Yu-Yen Ou, M. Michael Gromiha, Shu-An Chen, Makiko Suwa
TMBETADISC-RBF: Discrimination of beta-barrel membrane proteins using RBF networks and PSSM profiles. Comput. Biol. Chem. 32 (3) (2008)
Chung-Tsai Su, Tong-Ming Hsu, Chien-Yu Chen, Yu-Yen Ou, Yen-Jen Oyang
Enhancing Protein Disorder Detection by Refined Secondary Structure Prediction. BIRD (2007)
Yu-Yen Ou, Shu-An Chen, Chung-Lu Shao, Hao-Geng Hung
Using Efficient RBF Network to Identify Interface Residues Based on PSSM Profiles and Biochemical Properties. PRIB (2007)
Yen-Jen Oyang, Darby Tien-Hao Chang, Yu-Yen Ou, Hao-Geng Hung, Chien-Yu Chen
Prediction of Protein Secondary Structures with a Novel Kernel Density Estimator. MLMTA (2007)
Chung-Tsai Su, Chien-Yu Chen, Yu-Yen Ou
Protein disorder prediction by condensed PSSM considering propensity for order or disorder. BMC Bioinform. 7 (2006)
Yu-Yen Ou, Guan-Hau Chen, Yen-Jen Oyang
Expediting Model Selection for Support Vector Machines Based on an Advanced Data Reduction Algorithm. PRICAI (2006)
Yu-Yen Ou, Hao-Geng Hung, Yen-Jen Oyang
A Study of Supervised Learning with Multivariate Analysis on Unbalanced Datasets. IJCNN (2006)
Yen-Jen Oyang, Shien-Ching Hwang, Yu-Yen Ou, Chien-Yu Chen, Zhi-Wei Chen
Data classification with radial basis function networks based on a novel kernel density estimation algorithm. IEEE Trans. Neural Networks 16 (1) (2005)
Yu-Yen Ou, Chien-Yu Chen, Shien-Ching Hwang, Yen-Jen Oyang
Expediting model selection for Support Vector Machines based on data reduction. SMC (2003)