Choosing priors for an important class of signal processing problems. - Yufei Huang 001; Petar M. Djuric (EUSIPCO, 2000)

Bayesian detection of transient signals in colored noise. - Yufei Huang 001; Petar M. Djuric (ICASSP, 2000)

Estimation of a Bernoulli parameter p from imperfect trials. - Petar M. Djuric; Yufei Huang 001 (IEEE Signal Process. Lett., 2000)

Multiuser detection of synchronous CDMA signals by the Gibbs coupler. - Yufei Huang 001; Petar M. Djuric (ICASSP, 2001)

Applications of particle filtering to communications: A review. - Petar M. Djuric; Jianqiu Zhang 002; Tadesse Ghirmai; Yufei Huang 001; Jayesh H. Kotecha (EUSIPCO, 2002)

A blind particle filtering detector for joint channel estimation, tracking and data detection over flat fading channels. - Yufei Huang 001; Petar M. Djuric (EUSIPCO, 2002)

Multiuser detection with particle filtering. - Jianqiu Zhang 002; Yufei Huang 001; Petar M. Djuric (EUSIPCO, 2002)

A new importance function for particle filtering and its application to blind detection in flat fading channels. - Yufei Huang 001; Petar M. Djuric (ICASSP, 2002)

Variable Selection by Perfect Sampling. - Yufei Huang 001; Petar M. Djuric (EURASIP J. Adv. Signal Process., 2002)

Perfect sampling: a review and applications to signal processing. - Petar M. Djuric; Yufei Huang 001; Tadesse Ghirmai (IEEE Trans. Signal Process., 2002)

Multiuser detection of synchronous code-division multiple-access signals by perfect sampling. - Yufei Huang 001; Petar M. Djuric (IEEE Trans. Signal Process., 2002)

Joint velocity estimation and symbol detection in non-stationary fading channels by particle filtering. - Yufei Huang 001; Petar M. Djuric; Jianqiu (Michelle) Zhang (GLOBECOM, 2003)

Lower bounds on the variance of deterministic signal parameter estimators using Bayesian inference. - Yufei Huang 001; Jianqiu (Michelle) Zhang (ICASSP (6), 2003)

Detection with particle filtering in BLAST systems. - Yufei Huang 001; Jianqiu Zhang 002; Petar M. Djuric (ICC, 2003)

Particle filtering. - Petar M. Djuric; Jayesh H. Kotecha; Jianqui Zhang; Yufei Huang 001; Tadesse Ghirmai; Mónica F. Bugallo; Joaquín Míguez (IEEE Signal Process. Mag., 2003)

Turbo equalization using probabilistic data association. - Yufang Yin; Yufei Huang 001; Jianqiu (Michelle) Zhang (GLOBECOM, 2004)

Joint symbol detection and timing estimation with stochastic M-algorithm. - Yufang Yin; Yufei Huang 001; Jianqiu (Michelle) Zhang (ICASSP (4), 2004)

A generalized probabilistic data association multiuser detector. - Yufei Huang 001; Jianqiu (Michelle) Zhang (ISIT, 2004)

A hybrid importance function for particle filtering. - Yufei Huang 001; Petar M. Djuric (IEEE Signal Process. Lett., 2004)

A blind particle filtering detector of signals transmitted over flat fading channels. - Yufei Huang 001; Petar M. Djuric (IEEE Trans. Signal Process., 2004)

Sensor validation for flight control by particle filtering. - Tao Wei; Yufei Huang 001; Philip Chen 001 (EUSIPCO, 2005)

Belief-directed sequential probabilistic data association multiuser detector. - Yufei Huang 001; Yufang Yin; Jianqiu (Michelle) Zhang (ICASSP (3), 2005)

Symbol detection with time-varying unknown phase by expectation propagation. - Tao Wei; Yufei Huang 001; Yuan (Alan) Qi (ICASSP (3), 2005)

Remaining engine life estimation for a sensor-based aircraft engine. - Ten-Huei Guo; Philip Chen 001; Yufei Huang 001 (SMC, 2005)

Adaptive Blind Multiuser Detection over Flat Fast Fading Channels Using Particle Filtering. - Yufei Huang 001; Jianqiu (Michelle) Zhang; Isabel M. Tienda-Luna; Petar M. Djuric; Diego Pablo Ruiz Padillo (EURASIP J. Wirel. Commun. Netw., 2005)

Bayesian detection for BLAST. - Yufei Huang 001; Jianqiu (Michelle) Zhang; Petar M. Djuric (IEEE Trans. Signal Process., 2005)

Reverse Engineering Yeast Gene Regulatory Networks using Graphical Models. - Jiayin Wang; Yufei Huang 001; Maribel Sanchez; Yufeng Wang 002; Jianqiu (Michelle) Zhang (ICASSP (2), 2006)

Particle Filtering for Adaptive Sensor Fault Detection and Identification. - Tao Wei; Yufei Huang 001; C. L. Philip Chen (ICRA, 2006)

Clustering Of Gene Expression Data Based On Shape Similarity. - Travis J. Hestilow; James Perez; Yufei Huang 001 (BIOCOMP, 2007)

Uncovering Gene Regulatory Networks from Time-Series Microarray Data with Variational Bayesian Structural Expectation Maximization. - Isabel M. Tienda-Luna; Yufei Huang 001; Yufang Yin; Diego Pablo Ruiz Padillo; Maria Carmen Carrion Perez (EURASIP J. Bioinform. Syst. Biol., 2007)

Bayesian Inference of Genetic Regulatory Networks from Time Series Microarray Data Using Dynamic Bayesian Networks. - Yufei Huang 001; Jianyin Wang; Jianqiu Zhang 002; Maribel Sanchez; Yufeng Wang 002 (J. Multim., 2007)

Bayesian peak detection for Pro-TOF MS MALDI data. - Jianqiu Zhang 002; Honghui Wang; Anthony Suffredini; Denise Gonzales; Elias Gonzalez; Yufei Huang 001; Xiaobo Zhou 001 (ICASSP, 2008)

Constructing Gene Networks Using Variational Bayesian Variable Selection. - Isabel M. Tienda-Luna; Yufang Yin; Yufei Huang 001; Diego Pablo Ruiz Padillo; Maria Carmen Carrion Perez; Yufeng Wang 002 (Artif. Life, 2008)

A comprehensive study of a SVM-based miRNA target prediction algorithm. - Hui Liu 024; Dong Yue 002; Yidong Chen 002; Yufei Huang 001 (GENSiPS, 2009)

Mapping miRNA Regulation to Functional Gene Sets. - Yidong Chen 002; Hung-I Harry Chen; Yufei Huang 001 (IJCBS, 2009)

A Bayesian Approach for Identifying miRNA Targets by Combining Sequence Prediction and Expression Profiling. - Hui Liu 024; Lin Zhang 015; Shou-Jiang Gao; Yufei Huang 001 (IJCBS, 2009)

Enrichment constrained time-dependent clustering analysis for finding meaningful temporal transcription modules. - Jia Meng 001; Shou-Jiang Gao; Yufei Huang 001 (Bioinform., 2009)

Clustering of Gene Expression Data Based on Shape Similarity. - Travis J. Hestilow; Yufei Huang 001 (EURASIP J. Bioinform. Syst. Biol., 2009)

Applications of Signal Processing Techniques to Bioinformatics, Genomics, and Proteomics. - Erchin Serpedin; Javier Garcia-Frías; Yufei Huang 001; Ulisses M. Braga-Neto (EURASIP J. Bioinform. Syst. Biol., 2009)

Reverse engineering gene regulatory networks. - Yufei Huang 001; Isabel M. Tienda-Luna; Yufeng Wang 002 (IEEE Signal Process. Mag., 2009)

Adaptive Sensor Fault Detection and Identification Using Particle Filter Algorithms. - Tao Wei; Yufei Huang 001; C. L. Philip Chen (IEEE Trans. Syst. Man Cybern. Part C, 2009)

Constructing a compound mode-of-action network for personalized drug effectiveness prediction. - Chifeng Ma; Hung-I Harry Chen; Yufei Huang 001; Yidong Chen 002 (BCB, 2010)

A Bayesian decision fusion approach for microRNA target prediction. - Dong Yue 002; Hui Liu 024; Mingzhu Lu; Philip Chen 001; Yidong Chen 002; Yufei Huang 001 (BCB, 2010)

A computational framework for predicting drug Mode-of-Action. - Chifeng Ma; Hung-I Harry Chen; Yufei Huang 001; Yidong Chen 002 (BIBM Workshops, 2010)

An Iterated Conditional Modes solution for sparse Bayesian factor modeling of transcriptional regulatory networks. - Jia Meng 001; Jianqiu Zhang 002; Yidong Chen 002; Yufei Huang 001 (BIBM, 2010)

Computational prediction of MicroRNA regulatory pathways. - Dong Yue 002; Yidong Chen 002; Shou-Jiang Gao; Yufei Huang 001 (BIBM Workshops, 2010)

An iterated conditional mode solution for Bayesian factor modeling of transcriptional regulatory networks. - Jia Meng 001; Jianqiu Zhang 002; Yidong Chen 002; Yufei Huang 001 (GENSiPS, 2010)

SysMicrO: A Novel Systems Approach for miRNA Target Prediction. - Hui Liu 024; Lin Zhang 015; Qilong Sun; Yidong Chen 002; Yufei Huang 001 (ICIC (2), 2010)

miRNA Target Prediction Method Based on the Combination of Multiple Algorithms. - Lin Zhang 015; Hui Liu 024; Dong Yue 002; Hui He; Yufei Huang 001 (ICIC (1), 2010)

Improving performance of mammalian microRNA target prediction. - Hui Liu 024; Dong Yue 002; Yidong Chen 002; Shou-Jiang Gao; Yufei Huang 001 (BMC Bioinform., 2010)

Uncovering Transcriptional Regulatory Networks by Sparse Bayesian Factor Model. - Jia Meng 001; Jianqiu (Michelle) Zhang; Yuan (Alan) Qi; Yidong Chen 002; Yufei Huang 001 (EURASIP J. Adv. Signal Process., 2010)

Bayesian peptide peak detection for high resolution TOF mass spectrometry. - Jianqiu Zhang 002; Xiaobo Zhou 001; Honghui Wang; Anthony Suffredini; Lin Zhang 015; Yufei Huang 001; Stephen T. C. Wong (IEEE Trans. Signal Process., 2010)

Gene sets enrichment analysis of miRNA expression profile. - Tzu-Hung Hsiao; Hung-I Harry Chen; Patricia C. Sanchez-Diaz; Jaclyn Y. Hung; Yidong Chen 002; Yufei Huang 001 (BIBM Workshops, 2011)

Comprehensive investigation of connectivity map data-towards a drug mode of action network for personalized thnerapy. - Chifeng Ma; Yufei Huang 001; Huang-I Harry; Yidong Chen 002 (BIBM Workshops, 2011)

Beyond seed match: Improving miRNA target prediction using PAR-CLIP data. - Mingzhu Lu; C. L. Philip Chen; Yufei Huang 001 (GENSiPS, 2011)

Clustering DNA methylation expressions using nonparametric beta mixture model. - Lin Zhang 015; Jia Meng 001; Hui Liu 024; Yufei Huang 001 (GENSiPS, 2011)

Uncover cooperative gene regulations by microRNAs and transcription factors in glioblastoma using a nonnegative hybrid factor model. - Jia Meng 001; Hung-I Chen 001; Jianqiu Zhang 002; Yidong Chen 002; Yufei Huang 001 (ICASSP, 2011)

PlantMiRNAPred: efficient classification of real and pseudo plant pre-miRNAs. - Ping Xuan; Maozu Guo 001; Xiaoyan Liu; Yangchao Huang; Wenbin Li; Yufei Huang 001 (Bioinform., 2011)

Bayesian parameter estimation for nonlinear modelling of biological pathways. - Omid Ghasemi; Merry Lindsey; Tianyi Yang; Nguyen T. Nguyen; Yufei Huang 001; Yufang Jin (BMC Syst. Biol., 2011)

A new algorithm for predicting competing endogenous rnas. - Mario Flores; Yufei Huang 001 (GENSiPS, 2012)

An investigation of clinical outcome prediction from integrative genomic profiles in ovarian cancer. - Lin Zhang 015; Hui Liu 024; Tzu-Hung Hsiao; Yidong Chen 002; Yufei Huang 001 (GENSiPS, 2012)

Classification of EEG recordings without perfectly time-locked events. - Jia Meng 001; Lenis Mauricio Merino; Kay Robbins; Yufei Huang 001 (SSP, 2012)

Exploiting correlated discriminant features in time frequency and space for characterization and robust classification of image RSVP events with EEG data. - Jia Meng 001; Lenis Mauricio Merino; Kay Robbins; Yufei Huang 001 (SSP, 2012)

Basis-expansion factor models for uncovering transcription factor regulatory network. - Manuel Sanchez-Castillo; Jia Meng 001; Isabel M. Tienda-Luna; Yufei Huang 001 (SSP, 2012)

Advances in systems biology: computational algorithms and applications. - Yufei Huang 001; Zhongming Zhao; Hua Xu 001; Yu Shyr; Bing Zhang 003 (BMC Syst. Biol., 2012)

Iterative decoding in Factor Graph representation using Particle Filtering. - Isabel M. Tienda-Luna; Diego P. Ruiz 001; Yufei Huang 001; María C. Carrión 001 (Digit. Signal Process., 2012)

Temporal clustering of gene expression patterns using short-time segments. - Nguyen T. Nguyen; Ying Ann Chiao; Yufei Huang 001; Shou-Jiang Gao; Merry Lindsey; Yidong Chen 002; Yufang Jin (Int. J. Funct. Informatics Pers. Medicine, 2012)

Understanding MicroRNA Regulation: A computational perspective. - Dong Yue 002; Jia Meng 001; Mingzhu Lu; C. L. Philip Chen; Maozu Guo 001; Yufei Huang 001 (IEEE Signal Process. Mag., 2012)

BIMMER: A Bi-layer hidden Markov model for differential methylation analysis. - Zijing Mao; Tim Hui-Ming Huang; Yidong Chen 002; Yufei Huang 001 (BIBM, 2013)

Unveiling the dynamics in RNA epigenetic regulations. - Jia Meng 001; Xiaodong Cui; Hui Liu 024; Lin Zhang 015; Shaowu Zhang 001; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (BIBM, 2013)

Integration of gene expression, genome wide DNA methylation, and gene networks for clinical outcome prediction in ovarian cancer. - Lin Zhang 015; Hui Liu 024; Jia Meng 001; Xuesong Wang 001; Yidong Chen 002; Yufei Huang 001 (BIBM, 2013)

Bayesian sparse factor model for transcriptional regulatory networks inference. - Manuel Sanchez-Castillo; Isabel M. Tienda-Luna; David Blanco; Maria Carmen Carrion Perez; Yufei Huang 001 (EUSIPCO, 2013)

An HMM-based Exome Peak-finding package for RNA epigenome sequencing data. - Xiaodong Cui; Jia Meng 001; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (GENSiPS, 2013)

NetceRNA: An algorithm for construction of phenotype-specific regulation networks via competing endogenous RNAs. - Mario Flores; Yufei Huang 001; Yidong Chen 002 (GENSiPS, 2013)

A Deep Learning method for classification of images RSVP events with EEG data. - Shaheen Ahmed; Lenis Mauricio Merino; Zijing Mao; Jia Meng 001; Kay Robbins; Yufei Huang 001 (GlobalSIP, 2013)

Differential analysis of rna methylation sequencing data. - Xiaodong Cui; Jia Meng 001; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (GlobalSIP, 2013)

A bag-of-words model for task-load prediction from EEG in complex environments. - Lenis Mauricio Merino; Jia Meng 001; Stephen M. Gordon; Brent J. Lance; Tony Johnson; Victor Paul; Kay Robbins; Jean M. Vettel; Yufei Huang 001 (ICASSP, 2013)

A system based approach to construct a Kaposi sarcoma-associated herpesvirus (KSHV) specific pathway crosstalk network. - Amy Wafa Daali; Yufei Huang 001; Mo M. Jamshidi (SoSE, 2013)

Gene Regulation, Modulation, and Their Applications in Gene Expression Data Analysis. - Mario Flores; Tzu-Hung Hsiao; Yu-Chiao Chiu; Eric Y. Chuang; Yufei Huang 001; Yidong Chen 002 (Adv. Bioinformatics, 2013)

Computational and Statistical Approaches for Modeling of Proteomic and Genomic Networks. - Mohamed N. Nounou; Hazem N. Nounou; Erchin Serpedin; Aniruddha Datta; Yufei Huang 001 (Adv. Bioinformatics, 2013)

Exome-based analysis for RNA epigenome sequencing data. - Jia Meng 001; Xiaodong Cui; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (Bioinform., 2013)

BRCA-Monet: a breast cancer specific drug treatment mode-of-action network for treatment effective prediction using large scale microarray database. - Chifeng Ma; Hung-I Harry Chen; Mario Flores; Yufei Huang 001; Yidong Chen 002 (BMC Syst. Biol., 2013)

Classification of non-time-locked rapid serial visual presentation events for brain-computer interaction using deep learning. - Zijing Mao; Vernon Lawhern; Lenis Mauricio Merino; Kenneth Ball; Li Deng; Brent J. Lance; Kay Robbins; Yufei Huang 001 (ChinaSIP, 2014)

Detecting differentially methylated mRNA from MeRIP-Seq with likelihood ratio test. - Lin Zhang 015; Jia Meng 001; Hui Liu 024; Xiaodong Cui; Shao-Wu Zhang 001; Yidong Chen 002; Yufei Huang 001 (GlobalSIP, 2014)

Differential analysis of RNA methylome with improved spatial resolution. - Yu-Chen Zhang; Shao-Wu Zhang 001; Lian Liu; Lin Zhang 015; Hui Liu 024; Xiaodong Cui; Yufei Huang 001; Jia Meng 001 (GlobalSIP, 2014)

BIMMER: a novel algorithm for detecting differential DNA methylation regions from MBDCap-seq data. - Zijing Mao; Chifeng Ma; Tim Hui-Ming Huang; Yidong Chen 002; Yufei Huang 001 (BMC Bioinform., 2014)

Classification of Imperfectly Time-Locked Image RSVP Events with EEG Device. - Jia Meng 001; Lenis Mauricio Merino; Kay Robbins; Yufei Huang 001 (Neuroinformatics, 2014)

Selected Articles from the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2012). - Yufei Huang 001; Yidong Chen 002; Xiaoning Qian (IEEE ACM Trans. Comput. Biol. Bioinform., 2014)

Sketching the distribution of transcriptomic features on RNA transcripts with Travis coordinates. - Xiaodong Cui; Zhen Wei; Lin Zhang 015; Hui Liu 024; Lei Sun; Shaowu Zhang 001; Yufei Huang 001; Jia Meng 001 (BIBM, 2015)

Prediction of driver's drowsy and alert states from EEG signals with deep learning. - Mehdi Hajinoroozi; Zijing Mao; Yufei Huang 001 (CAMSAP, 2015)

Modeling of replicates variances for detecting RNA methylation site in MERIP-SEQ data. - Xiaodong Cui; Jia Meng 001; Shaowu Zhang 001; Yufei Huang 001 (ChinaSIP, 2015)

Feature extraction with deep belief networks for driver's cognitive states prediction from EEG data. - Mehdi Hajinoroozi; Tzyy-Ping Jung; Chin-Teng Lin; Yufei Huang 001 (ChinaSIP, 2015)

MeT-DB: a database of transcriptome methylation in mammalian cells. - Hui Liu 024; Mario A. Flores; Jia Meng 001; Lin Zhang 015; Xinyu Zhao; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (Nucleic Acids Res., 2015)

Detection of control or idle state with a likelihood ratio test in asynchronous SSVEP-based brain-computer interface systems. - Lenis Mauricio Merino; Tapsya Nayak; Garrett Hall; Daniel J. Pack; Yufei Huang 001 (EMBC, 2016)

Predicting EEG Sample Size Required for Classification Calibration. - Zijing Mao; Tzyy-Ping Jung; Chin-Teng Lin; Yufei Huang 001 (HCI (13), 2016)

A novel algorithm for calling mRNA m6A peaks by modeling biological variances in MeRIP-seq data. - Xiaodong Cui; Jia Meng 001; Shaowu Zhang 001; Yidong Chen 002; Yufei Huang 001 (Bioinform., 2016)

Advancing Systems Biology in the International Conference on Intelligent Biology and Medicine (ICIBM) 2015. - Zhongming Zhao; Yunlong Liu; Yufei Huang 001; Kun Huang; Jianhua Ruan (BMC Syst. Biol., 2016)

m6A-Driver: Identifying Context-Specific mRNA m6A Methylation-Driven Gene Interaction Networks. - Song-Yao Zhang; Shao-Wu Zhang 001; Lian Liu; Jia Meng 001; Yufei Huang 001 (PLoS Comput. Biol., 2016)

EEG-based prediction of driver's cognitive performance by deep convolutional neural network. - Mehdi Hajinoroozi; Zijing Mao; Tzyy-Ping Jung; Chin-Teng Lin; Yufei Huang 001 (Signal Process. Image Commun., 2016)

A deep learning model for predicting transcription factor binding location at single nucleotide resolution. - Sirajul Salekin; Jianqiu (Michelle) Zhang; Yufei Huang 001 (BHI, 2017)

Prediction of fatigue-related driver performance from EEG data by deep Riemannian model. - Mehdi Hajinoroozi; Jianqiu (Michelle) Zhang; Yufei Huang 001 (EMBC, 2017)

Design of deep convolutional networks for prediction of image rapid serial visual presentation events. - Zijing Mao; Wan Xiang Yao; Yufei Huang 001 (EMBC, 2017)

Prediction of temperature induced office worker's performance during typing task using EEG. - Tapsya Nayak; Tinghe Zhang; Zijing Mao; Xiaojing Xu; Daniel J. Pack; Bing Dong; Yufei Huang 001 (EMBC, 2017)

Deep Transfer Learning for Cross-subject and Cross-experiment Prediction of Image Rapid Serial Visual Presentation Events from EEG Data. - Mehdi Hajinoroozi; Zijing Mao; Yuan-Pin Lin; Yufei Huang 001 (HCI (14), 2017)

EEG-based biometric identification with deep learning. - Zijing Mao; Wan Xiang Yao; Yufei Huang 001 (NER, 2017)

Driver's fatigue prediction by deep covariance learning from EEG. - Mehdi Hajinoroozi; Jianqiu (Michelle) Zhang; Yufei Huang 001 (SMC, 2017)

QNB: differential RNA methylation analysis for count-based small-sample sequencing data with a quad-negative binomial model. - Lian Liu; Shao-Wu Zhang 001; Yufei Huang 001; Jia Meng 001 (BMC Bioinform., 2017)

Cancer Progression Prediction Using Gene Interaction Regularized Elastic Net. - Lin Zhang 015; Hui Liu 024; Yufei Huang 001; Xuesong Wang 001; Yidong Chen 002; Jia Meng 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Malware Detection in Cloud Infrastructures Using Convolutional Neural Networks. - Mahmoud Abdelsalam; Ram Krishnan; Yufei Huang 001; Ravi S. Sandhu (IEEE CLOUD, 2018)

A Machine Learning Approach for Uncovering N6-methyladenosine-Disease Association. - Songyao Zhang; Shaowu Zhang 001; Xiaonan Fan 001; Jia Meng 001; Yidong Chen 002; Yufei Huang 001 (BCB, 2018)

Deep EEG super-resolution: Upsampling EEG spatial resolution with Generative Adversarial Networks. - Isaac A. Corley; Yufei Huang 001 (BHI, 2018)

A hierarchical LSTM model with attention for modeling EEG non-stationarity for human decision prediction. - Md Musaddaqul Hasib; Tapsya Nayak; Yufei Huang 001 (BHI, 2018)

Generating target/non-target images of an RSVP experiment from brain signals in by conditional generative adversarial network. - Yonggun Lee; Yufei Huang 001 (BHI, 2018)

CLIPSeed: Achieving High Precision miRNA Binding Sites Prediction using PAR-CLIP Data. - Mingzhu Lu; Yufei Huang 001 (BIBM, 2018)

Deep-2'-O-Me: Predicting 2'-O-methylation sites by Convolutional Neural Networks. - Milad Mostavi; Sirajul Salekin; Yufei Huang 001 (EMBC, 2018)

Base-pair resolution detection of transcription factor binding site by deep deconvolutional network. - Sirajul Salekin; Jianqiu (Michelle) Zhang; Yufei Huang 001 (Bioinform., 2018)

A Bayesian framework for the inference of gene regulatory networks from time and pseudo-time series data. - Manuel Sanchez-Castillo; David Blanco; Isabel M. Tienda-Luna; Maria Carmen Carrion Perez; Yufei Huang 001 (Bioinform., 2018)

Predicting drug response of tumors from integrated genomic profiles by deep neural networks. - Yu-Chiao Chiu; Hung-I Harry Chen; Tinghe Zhang; Songyao Zhang; Aparna Gorthi; Li-Ju Wang; Yufei Huang 001; Yidong Chen 002 (CoRR, 2018)

GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization. - Hung-I Harry Chen; Yu-Chiao Chiu; Tinghe Zhang; Songyao Zhang; Yufei Huang 001; Yidong Chen 002 (CoRR, 2018)

Deep Learning Models for EEG-based Rapid Serial Visual Presentation Event Classification. - Fuquan Zhang 001; Zijing Mao; Yufei Huang 001; Lin Xu; Gangyi Ding (J. Inf. Hiding Multim. Signal Process., 2018)

MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome. - Hui Liu 024; Huaizhi Wang; Zhen Wei; Songyao Zhang; Gang Hua 002; Shao-Wu Zhang 001; Lin Zhang 015; Shou-Jiang Gao; Jia Meng 001; Xing Chen 001; Yufei Huang 001 (Nucleic Acids Res., 2018)

MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data. - Xiaodong Cui; Lin Zhang 015; Jia Meng 001; Manjeet K. Rao; Yidong Chen 002; Yufei Huang 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

Charactering hESCs Organoids from Electrical Signals with Machine Learning. - Md Musaddaqul Hasib; Zane Lybrand; Vanesa Nieto Estevez; Jenny Hsieh; Yufei Huang 001 (BHI, 2019)

Predicting Auditory Spatial Attention from EEG using Single- and Multi-task Convolutional Neural Networks. - Zhentao Liu; Jeffrey Mock; Yufei Huang 001; Edward J. Golob (SMC, 2019)

Target Classification in a Novel SSVEP-RSVP Based BCI Gaming System. - Tapsya Nayak; Li-Wei Ko; Tzyy-Ping Jung; Yufei Huang 001 (SMC, 2019)

A Semi-Supervised Wasserstein Generative Adversarial Network for Classifying Driving Fatigue from EEG signals. - Sharaj Panwar; Paul Rad; John Quarles; Edward J. Golob; Yufei Huang 001 (SMC, 2019)

Generating EEG signals of an RSVP Experiment by a Class Conditioned Wasserstein Generative Adversarial Network. - Sharaj Panwar; Paul Rad; John Quarles; Yufei Huang 001 (SMC, 2019)

FunDMDeep-m6A: identification and prioritization of functional differential m6A methylation genes. - Song-Yao Zhang; Shao-Wu Zhang 001; Xiao-Nan Fan 001; Teng Zhang; Jia Meng 001; Yufei Huang 001 (Bioinform., 2019)

Convolutional neural network models for cancer type prediction based on gene expression. - Milad Mostavi; Yu-Chiao Chiu; Yufei Huang 001; Yidong Chen 002 (CoRR, 2019)

Modeling EEG data distribution with a Wasserstein Generative Adversarial Network to predict RSVP Events. - Sharaj Panwar; Paul Rad; Tzyy-Ping Jung; Yufei Huang 001 (CoRR, 2019)

Feature Selection of Deep Learning Models for EEG-Based RSVP Target Detection. - Jingxia Chen; Zijing Mao; Ru Zheng; Yufei Huang 001; Lifeng He (IEICE Trans. Inf. Syst., 2019)

Global analysis of N6-methyladenosine functions and its disease association using deep learning and network-based methods. - Song-Yao Zhang; Shaowu Zhang 001; Xiaonan Fan 001; Jia Meng 001; Yidong Chen 002; Shou-Jiang Gao; Yufei Huang 001 (PLoS Comput. Biol., 2019)

Automatic Detection and Prediction of Cybersickness Severity using Deep Neural Networks from user's Physiological Signals. - Rifatul Islam; Yonggun Lee; Mehrad Jaloli; Imtiaz Muhammad; Dakai Zhu 001; Paul Rad; Yufei Huang 001; John Quarles (ISMAR, 2020)

Deep learning of pharmacogenomics resources: moving towards precision oncology. - Yu-Chiao Chiu; Hung-I Harry Chen; Aparna Gorthi; Milad Mostavi; Siyuan Zheng; Yufei Huang 001; Yidong Chen 002 (Briefings Bioinform., 2020)

Interpretable Self-Supervised Facial Micro-Expression Learning to Predict Cognitive State and Neurological Disorders. - Arun Das 001; Jeffrey Mock; Yufei Huang 001; Edward J. Golob; Peyman Najafirad (AAAI, 2021)

Access Control Policy Generation from User Stories Using Machine Learning. - John Heaps; Ram Krishnan; Yufei Huang 001; Jianwei Niu 001; Ravi S. Sandhu (DBSec, 2021)

CancerSiamese: one-shot learning for predicting primary and metastatic tumor types unseen during model training. - Milad Mostavi; Yu-Chiao Chiu; Yidong Chen 002; Yufei Huang 001 (BMC Bioinform., 2021)

Toward Deep Learning Based Access Control. - Mohammad Nur Nobi; Ram Krishnan; Yufei Huang 001; Mehrnoosh Shakarami; Ravi S. Sandhu (CODASPY, 2022)

Administration of Machine Learning Based Access Control. - Mohammad Nur Nobi; Ram Krishnan; Yufei Huang 001; Ravi S. Sandhu (ESORICS (2), 2022)

Deep learning tackles single-cell analysis - a survey of deep learning for scRNA-seq analysis. - Mario Flores; Zhentao Liu; Tinghe Zhang; Md Musaddaqui Hasib; Yu-Chiao Chiu; Zhenqing Ye; Karla Paniagua; Sumin Jo; Jianqiu Zhang 002; Shou-Jiang Gao; Yu-Fang Jin; Yidong Chen 002; et al. (Briefings Bioinform., 2022)

On the role of deep learning model complexity in adversarial robustness for medical images. - David Rodriguez; Tapsya Nayak; Yidong Chen 002; Ram Krishnan; Yufei Huang 001 (BMC Medical Informatics Decis. Mak., 2022)

Leveraging Foundation Models to Improve Lightweight Clients in Federated Learning. - Xidong Wu; Wan-Yi Lin; Devin Willmott; Filipe Condessa; Yufei Huang 001; Zhenzhen Li; Madan Ravi Ganesh (CoRR, 2023)

Fair patient model: Mitigating bias in the patient representation learned from the electronic health records. - Sonish Sivarajkumar; Yufei Huang 001; Yanshan Wang (J. Biomed. Informatics, 2023)

MetaphorPrompt - An Analogical Reasoning Approach for Extracting Causal Links from Biological Text. - Parth Patel; Yu-Chiao Chiu; Yufei Huang 001; Jianqiu Zhang 002 (BCB, 2024)

ReguloGPT: Harnessing GPT for End-to-End Knowledge Graph Construction of Molecular Regulatory Pathways. - Xidong Wu; Sumin Jo; Yiming Zeng 014; Arun Das 001; Tinghe Zhang; Parth Patel; Yuanjing Wei; Lei Li; Shou-Jiang Gao; Jianqiu Zhang 002; Dexter Pratt; Yu-Chiao Chiu; et al. (BHI, 2024)

Understanding YTHDF2-mediated mRNA degradation by m6A-BERT-Deg. - Tinghe Zhang; Sumin Jo; Michelle Zhang; Kai Wang; Shou-Jiang Gao; Yufei Huang 001 (Briefings Bioinform., 2024)

shinyDeepDR: A user-friendly R Shiny app for predicting anti-cancer drug response using deep learning. - Li-Ju Wang; Michael Ning; Tapsya Nayak; Michael J. Kasper; Satdarshan P. Monga; Yufei Huang 001; Yidong Chen 002; Yu-Chiao Chiu (Patterns, 2024)