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• affiliation:University of Pittsburgh, School of Medicine, PA, USA
• affiliation (former):University of Texas at San Antonio, Health Science Center, Department of Epidemiology and Biostatistics, TX, USA
• affiliation (PhD 2001):State University of New York at Stony Brook, NY, USA

• Yufei Huang0002 —Zhejiang University, Hangzhou, China(and 1 more)
• Yufei Huang0003 — South China Normal University, College of Mathematical Science, Guangzhou, China
• Yufei Huang0004 — Southeast University, National Mobile Communications Research Laboratory, Nanjing, China
• Yufei Huang0005 — Tianjin University, College of Intelligence and Computing, China
• Yufei Huang0006 —Trinity College, Business School, Dublin, Ireland(and 3 more)
• Yufei Huang0007 — Guangzhou Civil Aviation College, Department of Mathematics Teaching, China
• Yufei Huang0008 — Tsinghua University, Department of Computer Science and Technology, BNRist, Beijing, China
• Yufei Huang0009 — Beijing Institute of Spacecraft System Engineering, China
• Yufei Huang0010 — Hebei Normal University, College of Mathematics and Information Science, Shijiazhuang, China
• Yufei Huang0011 — Fujian Agriculture and Forestry University, Fuzhou, China
• Yufei Huang0012 — Rutgers University, Department of Industrial and Systems Engineering, New Brunswick, NJ, USA
• Yufei Huang0013 — Hechi University, School of Artificial Intelligence and Manufacturing, Yizhou, China
• Yufei Huang0014 — Xiamen University of Technology, School of Opto-Electronic and Conmmunication Engineering, China
• Yufei Huang0015 — University of Electronic Science and Technology of China, National Key Laboratory of Wireless Communications, Chengdu, China
• Yufei Huang0016 — South China Agricultural University, College of Mathematics and Informatics, Guangzhou, China
• Yufei Huang0017 — Shanghai Jiao Tong University, School of Medicine, Ruijin Hospital, Radiology Department, China
• Yufei Huang0018 — China Medical University, School of Intelligent Medicine, Department of Biomedical Engineering, Liaoning, China

• Freeman Yufei Huang — Queen's University, Department of Computing and Information Science, Kingston, ON, Canada
• Yuefei Huang —Tsinghua University, State Key Laboratory of Hydroscience and Engineering, Beijing, China(and 1 more)

• 2025
• 
  [i8]
  Isaac Corley,Yufei Huang:
  Deep EEG Super-Resolution: Upsampling EEG Spatial Resolution with Generative Adversarial Networks.CoRRabs/2502.08803 (2025)
• 2024
• 
  [j55]
  Tinghe Zhang,Sumin Jo,Michelle Zhang,Kai Wang,Shou-Jiang Gao,Yufei Huang:
  Understanding YTHDF2-mediated mRNA degradation by m6A-BERT-Deg.Briefings Bioinform.25(3) (2024)
• 
  [j54]
  Li-Ju Wang,Michael Ning,Tapsya Nayak,Michael J. Kasper,Satdarshan P. Monga,Yufei Huang,Yidong Chen,Yu-Chiao Chiu:
  shinyDeepDR: A user-friendly R Shiny app for predicting anti-cancer drug response using deep learning.Patterns5(2):100894 (2024)
• 
  [c89]
  Parth Patel,Yu-Chiao Chiu,Yufei Huang,Jianqiu Zhang:
  MetaphorPrompt - An Analogical Reasoning Approach for Extracting Causal Links from Biological Text.BCB2024:49:1-49:6
• 2023
• 
  [j53]
  Sonish Sivarajkumar,Yufei Huang,Yanshan Wang:
  Fair patient model: Mitigating bias in the patient representation learned from the electronic health records.J. Biomed. Informatics148:104544 (2023)
• 
  [i7]
  Sonish Sivarajkumar,Yufei Huang,Yanshan Wang:
  Fair Patient Model: Mitigating Bias in the Patient Representation Learned from the Electronic Health Records.CoRRabs/2306.03179 (2023)
• 
  [i6]
  Xidong Wu,Wan-Yi Lin,Devin Willmott,Filipe Condessa,Yufei Huang,Zhenzhen Li,Madan Ravi Ganesh:
  Leveraging Foundation Models to Improve Lightweight Clients in Federated Learning.CoRRabs/2311.08479 (2023)
• 2022
• 
  [j52]
  Mario Flores,Zhentao Liu,Tinghe Zhang,Md Musaddaqui Hasib,Yu-Chiao Chiu,Zhenqing Ye,Karla Paniagua,Sumin Jo,Jianqiu Zhang,Shou-Jiang Gao,Yu-Fang Jin,Yidong Chen,Yufei Huang:
  Deep learning tackles single-cell analysis - a survey of deep learning for scRNA-seq analysis.Briefings Bioinform.23(1) (2022)
• 
  [j51]
  David Rodriguez,Tapsya Nayak,Yidong Chen,Ram Krishnan,Yufei Huang:
  On the role of deep learning model complexity in adversarial robustness for medical images.BMC Medical Informatics Decis. Mak.22-S(2):160 (2022)
• 
  [c88]
  Mohammad Nur Nobi,Ram Krishnan,Yufei Huang,Mehrnoosh Shakarami,Ravi S. Sandhu:
  Toward Deep Learning Based Access Control.CODASPY2022:143-154
• 
  [c87]
  Mohammad Nur Nobi,Ram Krishnan,Yufei Huang,Ravi S. Sandhu:
  Administration of Machine Learning Based Access Control.ESORICS (2)2022:189-210
• 
  [i5]
  Mohammad Nur Nobi,Ram Krishnan,Yufei Huang,Mehrnoosh Shakarami,Ravi S. Sandhu:
  Toward Deep Learning Based Access Control.CoRRabs/2203.15124 (2022)
• 2021
• 
  [j50]
  Milad Mostavi,Yu-Chiao Chiu,Yidong Chen,Yufei Huang:
  CancerSiamese: one-shot learning for predicting primary and metastatic tumor types unseen during model training.BMC Bioinform.22(1):244 (2021)
• 
  [c86]
  Arun Das,Jeffrey Mock,Yufei Huang,Edward J. Golob,Peyman Najafirad:
  Interpretable Self-Supervised Facial Micro-Expression Learning to Predict Cognitive State and Neurological Disorders.AAAI2021:818-826
• 
  [c85]
  John Heaps,Ram Krishnan,Yufei Huang,Jianwei Niu,Ravi S. Sandhu:
  Access Control Policy Generation from User Stories Using Machine Learning.DBSec2021:171-188
• 
  [e1]
  Yufei Huang,Lukasz A. Kurgan,Feng Luo,Xiaohua Hu,Yidong Chen,Edward R. Dougherty,Andrzej Kloczkowski,Yaohang Li:
  IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021, Houston, TX, USA, December 9-12, 2021.IEEE2021, ISBN978-1-6654-0126-5[contents]
• 2020
• 
  [j49]
  Yu-Chiao Chiu,Hung-I Harry Chen,Aparna Gorthi,Milad Mostavi,Siyuan Zheng,Yufei Huang,Yidong Chen:
  Deep learning of pharmacogenomics resources: moving towards precision oncology.Briefings Bioinform.21(6):2066-2083 (2020)
• 
  [c84]
  Rifatul Islam,Yonggun Lee,Mehrad Jaloli,Imtiaz Muhammad,Dakai Zhu,Paul Rad,Yufei Huang,John Quarles:
  Automatic Detection and Prediction of Cybersickness Severity using Deep Neural Networks from user's Physiological Signals.ISMAR2020:400-411

• 2019
• 
  [j48]
  Song-Yao Zhang,Shao-Wu Zhang,Xiao-Nan Fan,Teng Zhang,Jia Meng,Yufei Huang:
  FunDMDeep-m6A: identification and prioritization of functional differential m6A methylation genes.Bioinform.35(14):i90-i98 (2019)
• 
  [j47]
  Jingxia Chen,Zijing Mao,Ru Zheng,Yufei Huang,Lifeng He:
  Feature Selection of Deep Learning Models for EEG-Based RSVP Target Detection.IEICE Trans. Inf. Syst.102-D(4):836-844 (2019)
• 
  [j46]
  Song-Yao Zhang,Shaowu Zhang,Xiaonan Fan,Jia Meng,Yidong Chen,Shou-Jiang Gao,Yufei Huang:
  Global analysis of N6-methyladenosine functions and its disease association using deep learning and network-based methods.PLoS Comput. Biol.15(1) (2019)
• 
  [c83]
  Md Musaddaqul Hasib,Zane Lybrand,Vanesa Nieto Estevez,Jenny Hsieh,Yufei Huang:
  Charactering hESCs Organoids from Electrical Signals with Machine Learning.BHI2019:1-4
• 
  [c82]
  Zhentao Liu,Jeffrey Mock,Yufei Huang,Edward J. Golob:
  Predicting Auditory Spatial Attention from EEG using Single- and Multi-task Convolutional Neural Networks.SMC2019:1298-1303
• 
  [c81]
  Sharaj Panwar,Paul Rad,John Quarles,Yufei Huang:
  Generating EEG signals of an RSVP Experiment by a Class Conditioned Wasserstein Generative Adversarial Network.SMC2019:1304-1310
• 
  [c80]
  Sharaj Panwar,Paul Rad,John Quarles,Edward J. Golob,Yufei Huang:
  A Semi-Supervised Wasserstein Generative Adversarial Network for Classifying Driving Fatigue from EEG signals.SMC2019:3943-3948
• 
  [c79]
  Tapsya Nayak,Li-Wei Ko,Tzyy-Ping Jung,Yufei Huang:
  Target Classification in a Novel SSVEP-RSVP Based BCI Gaming System.SMC2019:4194-4198
• 
  [i4]
  Milad Mostavi,Yu-Chiao Chiu,Yufei Huang,Yidong Chen:
  Convolutional neural network models for cancer type prediction based on gene expression.CoRRabs/1906.07794 (2019)
• 
  [i3]
  Sharaj Panwar,Paul Rad,Tzyy-Ping Jung,Yufei Huang:
  Modeling EEG data distribution with a Wasserstein Generative Adversarial Network to predict RSVP Events.CoRRabs/1911.04379 (2019)
• 2018
• 
  [j45]
  Manuel Sanchez-Castillo,David Blanco,Isabel M. Tienda-Luna,Maria Carmen Carrion Perez,Yufei Huang:
  A Bayesian framework for the inference of gene regulatory networks from time and pseudo-time series data.Bioinform.34(6):964-970 (2018)
• 
  [j44]
  Sirajul Salekin,Jianqiu (Michelle) Zhang,Yufei Huang:
  Base-pair resolution detection of transcription factor binding site by deep deconvolutional network.Bioinform.34(20):3446-3453 (2018)
• 
  [j43]
  Fuquan Zhang,Zijing Mao,Yufei Huang,Lin Xu,Gangyi Ding:
  Deep Learning Models for EEG-based Rapid Serial Visual Presentation Event Classification.J. Inf. Hiding Multim. Signal Process.9(1):177-187 (2018)
• 
  [j42]
  Hui Liu,Huaizhi Wang,Zhen Wei,Songyao Zhang,Gang Hua,Shao-Wu Zhang,Lin Zhang,Shou-Jiang Gao,Jia Meng,Xing Chen,Yufei Huang:
  MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome.Nucleic Acids Res.46(Database-Issue):D281-D287 (2018)
• 
  [j41]
  Xiaodong Cui,Lin Zhang,Jia Meng,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data.IEEE ACM Trans. Comput. Biol. Bioinform.15(2):526-534 (2018)
• 
  [c78]
  Mahmoud Abdelsalam,Ram Krishnan,Yufei Huang,Ravi S. Sandhu:
  Malware Detection in Cloud Infrastructures Using Convolutional Neural Networks.IEEE CLOUD2018:162-169
• 
  [c77]
  Songyao Zhang,Shaowu Zhang,Xiaonan Fan,Jia Meng,Yidong Chen,Yufei Huang:
  A Machine Learning Approach for Uncovering N6-methyladenosine-Disease Association.BCB2018:600
• 
  [c76]
  Isaac A. Corley,Yufei Huang:
  Deep EEG super-resolution: Upsampling EEG spatial resolution with Generative Adversarial Networks.BHI2018:100-103
• 
  [c75]
  Md Musaddaqul Hasib,Tapsya Nayak,Yufei Huang:
  A hierarchical LSTM model with attention for modeling EEG non-stationarity for human decision prediction.BHI2018:104-107
• 
  [c74]
  Yonggun Lee,Yufei Huang:
  Generating target/non-target images of an RSVP experiment from brain signals in by conditional generative adversarial network.BHI2018:182-185
• 
  [c73]
  Mingzhu Lu,Yufei Huang:
  CLIPSeed: Achieving High Precision miRNA Binding Sites Prediction using PAR-CLIP Data.BIBM2018:1764-1771
• 
  [c72]
  Milad Mostavi,Sirajul Salekin,Yufei Huang:
  Deep-2'-O-Me: Predicting 2'-O-methylation sites by Convolutional Neural Networks.EMBC2018:2394-2397
• 
  [i2]
  Yu-Chiao Chiu,Hung-I Harry Chen,Tinghe Zhang,Songyao Zhang,Aparna Gorthi,Li-Ju Wang,Yufei Huang,Yidong Chen:
  Predicting drug response of tumors from integrated genomic profiles by deep neural networks.CoRRabs/1805.07702 (2018)
• 
  [i1]
  Hung-I Harry Chen,Yu-Chiao Chiu,Tinghe Zhang,Songyao Zhang,Yufei Huang,Yidong Chen:
  GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization.CoRRabs/1805.07874 (2018)
• 2017
• 
  [j40]
  Lian Liu,Shao-Wu Zhang,Yufei Huang,Jia Meng:
  QNB: differential RNA methylation analysis for count-based small-sample sequencing data with a quad-negative binomial model.BMC Bioinform.18(1):387:1-387:12 (2017)
• 
  [j39]
  Lin Zhang,Hui Liu,Yufei Huang,Xuesong Wang,Yidong Chen,Jia Meng:
  Cancer Progression Prediction Using Gene Interaction Regularized Elastic Net.IEEE ACM Trans. Comput. Biol. Bioinform.14(1):145-154 (2017)
• 
  [c71]
  Sirajul Salekin,Jianqiu (Michelle) Zhang,Yufei Huang:
  A deep learning model for predicting transcription factor binding location at single nucleotide resolution.BHI2017:57-60
• 
  [c70]
  Tapsya Nayak,Tinghe Zhang,Zijing Mao,Xiaojing Xu,Daniel J. Pack,Bing Dong,Yufei Huang:
  Prediction of temperature induced office worker's performance during typing task using EEG.EMBC2017:1684-1687
• 
  [c69]
  Zijing Mao,Wan Xiang Yao,Yufei Huang:
  Design of deep convolutional networks for prediction of image rapid serial visual presentation events.EMBC2017:2035-2038
• 
  [c68]
  Mehdi Hajinoroozi,Jianqiu (Michelle) Zhang,Yufei Huang:
  Prediction of fatigue-related driver performance from EEG data by deep Riemannian model.EMBC2017:4167-4170
• 
  [c67]
  Mehdi Hajinoroozi,Zijing Mao,Yuan-Pin Lin,Yufei Huang:
  Deep Transfer Learning for Cross-subject and Cross-experiment Prediction of Image Rapid Serial Visual Presentation Events from EEG Data.HCI (14)2017:45-55
• 
  [c66]
  Zijing Mao,Wan Xiang Yao,Yufei Huang:
  EEG-based biometric identification with deep learning.NER2017:609-612
• 
  [c65]
  Mehdi Hajinoroozi,Jianqiu (Michelle) Zhang,Yufei Huang:
  Driver's fatigue prediction by deep covariance learning from EEG.SMC2017:240-245
• 2016
• 
  [j38]
  Xiaodong Cui,Jia Meng,Shaowu Zhang,Yidong Chen,Yufei Huang:
  A novel algorithm for calling mRNA m⁶A peaks by modeling biological variances in MeRIP-seq data.Bioinform.32(12):378-385 (2016)
• 
  [j37]
  Zhongming Zhao,Yunlong Liu,Yufei Huang,Kun Huang,Jianhua Ruan:
  Advancing Systems Biology in the International Conference on Intelligent Biology and Medicine (ICIBM) 2015.BMC Syst. Biol.10(S-3):61 (2016)
• 
  [j36]
  Song-Yao Zhang,Shao-Wu Zhang,Lian Liu,Jia Meng,Yufei Huang:
  m6A-Driver: Identifying Context-Specific mRNA m6A Methylation-Driven Gene Interaction Networks.PLoS Comput. Biol.12(12) (2016)
• 
  [j35]
  Mehdi Hajinoroozi,Zijing Mao,Tzyy-Ping Jung,Chin-Teng Lin,Yufei Huang:
  EEG-based prediction of driver's cognitive performance by deep convolutional neural network.Signal Process. Image Commun.47:549-555 (2016)
• 
  [c64]
  Lenis Mauricio Merino,Tapsya Nayak,Garrett Hall,Daniel J. Pack,Yufei Huang:
  Detection of control or idle state with a likelihood ratio test in asynchronous SSVEP-based brain-computer interface systems.EMBC2016:1568-1571
• 
  [c63]
  Zijing Mao,Tzyy-Ping Jung,Chin-Teng Lin,Yufei Huang:
  Predicting EEG Sample Size Required for Classification Calibration.HCI (13)2016:57-68
• 2015
• 
  [j34]
  Hui Liu,Mario A. Flores,Jia Meng,Lin Zhang,Xinyu Zhao,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  MeT-DB: a database of transcriptome methylation in mammalian cells.Nucleic Acids Res.43(Database-Issue):197-203 (2015)
• 
  [c62]
  Xiaodong Cui,Zhen Wei,Lin Zhang,Hui Liu,Lei Sun,Shaowu Zhang,Yufei Huang,Jia Meng:
  Sketching the distribution of transcriptomic features on RNA transcripts with Travis coordinates.BIBM2015:1536-1542
• 
  [c61]
  Mehdi Hajinoroozi,Zijing Mao,Yufei Huang:
  Prediction of driver's drowsy and alert states from EEG signals with deep learning.CAMSAP2015:493-496
• 
  [c60]
  Xiaodong Cui,Jia Meng,Shaowu Zhang,Yufei Huang:
  Modeling of replicates variances for detecting RNA methylation site in MERIP-SEQ data.ChinaSIP2015:802-806
• 
  [c59]
  Mehdi Hajinoroozi,Tzyy-Ping Jung,Chin-Teng Lin,Yufei Huang:
  Feature extraction with deep belief networks for driver's cognitive states prediction from EEG data.ChinaSIP2015:812-815
• 2014
• 
  [j33]
  Zijing Mao,Chifeng Ma,Tim Hui-Ming Huang,Yidong Chen,Yufei Huang:
  BIMMER: a novel algorithm for detecting differential DNA methylation regions from MBDCap-seq data.BMC Bioinform.15(S-12):S6 (2014)
• 
  [j32]
  Jia Meng,Lenis Mauricio Merino,Kay Robbins,Yufei Huang:
  Classification of Imperfectly Time-Locked Image RSVP Events with EEG Device.Neuroinformatics12(2):261-275 (2014)
• 
  [j31]
  Yufei Huang,Yidong Chen,Xiaoning Qian:
  Selected Articles from the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2012).IEEE ACM Trans. Comput. Biol. Bioinform.11(6):981-983 (2014)
• 
  [c58]
  Zijing Mao,Vernon Lawhern,Lenis Mauricio Merino,Kenneth Ball,Li Deng,Brent J. Lance,Kay Robbins,Yufei Huang:
  Classification of non-time-locked rapid serial visual presentation events for brain-computer interaction using deep learning.ChinaSIP2014:520-524
• 
  [c57]
  Lin Zhang,Jia Meng,Hui Liu,Xiaodong Cui,Shao-Wu Zhang,Yidong Chen,Yufei Huang:
  Detecting differentially methylated mRNA from MeRIP-Seq with likelihood ratio test.GlobalSIP2014:1368-1371
• 
  [c56]
  Yu-Chen Zhang,Shao-Wu Zhang,Lian Liu,Lin Zhang,Hui Liu,Xiaodong Cui,Yufei Huang,Jia Meng:
  Differential analysis of RNA methylome with improved spatial resolution.GlobalSIP2014:1372-1375
• 2013
• 
  [j30]
  Mario Flores,Tzu-Hung Hsiao,Yu-Chiao Chiu,Eric Y. Chuang,Yufei Huang,Yidong Chen:
  Gene Regulation, Modulation, and Their Applications in Gene Expression Data Analysis.Adv. Bioinformatics2013:360678:1-360678:11 (2013)
• 
  [j29]
  Mohamed N. Nounou,Hazem N. Nounou,Erchin Serpedin,Aniruddha Datta,Yufei Huang:
  Computational and Statistical Approaches for Modeling of Proteomic and Genomic Networks.Adv. Bioinformatics2013:561968:1-561968:2 (2013)
• 
  [j28]
  Jia Meng,Xiaodong Cui,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  Exome-based analysis for RNA epigenome sequencing data.Bioinform.29(12):1565-1567 (2013)
• 
  [j27]
  Chifeng Ma,Hung-I Harry Chen,Mario Flores,Yufei Huang,Yidong Chen:
  BRCA-Monet: a breast cancer specific drug treatment mode-of-action network for treatment effective prediction using large scale microarray database.BMC Syst. Biol.7(S-5):S5 (2013)
• 
  [c55]
  Zijing Mao,Tim Hui-Ming Huang,Yidong Chen,Yufei Huang:
  BIMMER: A Bi-layer hidden Markov model for differential methylation analysis.BIBM2013:99-102
• 
  [c54]
  Jia Meng,Xiaodong Cui,Hui Liu,Lin Zhang,Shaowu Zhang,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  Unveiling the dynamics in RNA epigenetic regulations.BIBM2013:139-144
• 
  [c53]
  Lin Zhang,Hui Liu,Jia Meng,Xuesong Wang,Yidong Chen,Yufei Huang:
  Integration of gene expression, genome wide DNA methylation, and gene networks for clinical outcome prediction in ovarian cancer.BIBM2013:535-538
• 
  [c52]
  Manuel Sanchez-Castillo,Isabel M. Tienda-Luna,David Blanco,Maria Carmen Carrion Perez,Yufei Huang:
  Bayesian sparse factor model for transcriptional regulatory networks inference.EUSIPCO2013:1-4
• 
  [c51]
  Mario Flores,Yufei Huang,Yidong Chen:
  NetceRNA: An algorithm for construction of phenotype-specific regulation networks via competing endogenous RNAs.GENSiPS2013:24-27
• 
  [c50]
  Xiaodong Cui,Jia Meng,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  An HMM-based Exome Peak-finding package for RNA epigenome sequencing data.GENSiPS2013:85
• 
  [c49]
  Shaheen Ahmed,Lenis Mauricio Merino,Zijing Mao,Jia Meng,Kay Robbins,Yufei Huang:
  A Deep Learning method for classification of images RSVP events with EEG data.GlobalSIP2013:33-36
• 
  [c48]
  Xiaodong Cui,Jia Meng,Manjeet K. Rao,Yidong Chen,Yufei Huang:
  Differential analysis of rna methylation sequencing data.GlobalSIP2013:41-42
• 
  [c47]
  Lenis Mauricio Merino,Jia Meng,Stephen M. Gordon,Brent J. Lance,Tony Johnson,Victor Paul,Kay Robbins,Jean M. Vettel,Yufei Huang:
  A bag-of-words model for task-load prediction from EEG in complex environments.ICASSP2013:1227-1231
• 
  [c46]
  Amy Wafa Daali,Yufei Huang,Mo M. Jamshidi:
  A system based approach to construct a Kaposi sarcoma-associated herpesvirus (KSHV) specific pathway crosstalk network.SoSE2013:273-278
• 2012
• 
  [j26]
  Yufei Huang,Zhongming Zhao,Hua Xu,Yu Shyr,Bing Zhang:
  Advances in systems biology: computational algorithms and applications.BMC Syst. Biol.6(S-3):S1 (2012)
• 
  [j25]
  Isabel M. Tienda-Luna,Diego P. Ruiz,Yufei Huang,María C. Carrión:
  Iterative decoding in Factor Graph representation using Particle Filtering.Digit. Signal Process.22(2):212-218 (2012)
• 
  [j24]
  Nguyen T. Nguyen,Ying Ann Chiao,Yufei Huang,Shou-Jiang Gao,Merry Lindsey,Yidong Chen,Yufang Jin:
  Temporal clustering of gene expression patterns using short-time segments.Int. J. Funct. Informatics Pers. Medicine4(1):32-46 (2012)
• 
  [j23]
  Dong Yue,Jia Meng,Mingzhu Lu,C. L. Philip Chen,Maozu Guo,Yufei Huang:
  Understanding MicroRNA Regulation: A computational perspective.IEEE Signal Process. Mag.29(1):77-88 (2012)
• 
  [c45]
  Lin Zhang,Hui Liu,Tzu-Hung Hsiao,Yidong Chen,Yufei Huang:
  An investigation of clinical outcome prediction from integrative genomic profiles in ovarian cancer.GENSiPS2012:103-106
• 
  [c44]
  Mario Flores,Yufei Huang:
  A new algorithm for predicting competing endogenous rnas.GENSiPS2012:118-121
• 
  [c43]
  Jia Meng,Lenis Mauricio Merino,Kay Robbins,Yufei Huang:
  Classification of EEG recordings without perfectly time-locked events.SSP2012:444-447
• 
  [c42]
  Jia Meng,Lenis Mauricio Merino,Kay Robbins,Yufei Huang:
  Exploiting correlated discriminant features in time frequency and space for characterization and robust classification of image RSVP events with EEG data.SSP2012:668-671
• 
  [c41]
  Manuel Sanchez-Castillo,Jia Meng,Isabel M. Tienda-Luna,Yufei Huang:
  Basis-expansion factor models for uncovering transcription factor regulatory network.SSP2012:700-703
• 2011
• 
  [j22]
  Ping Xuan,Maozu Guo,Xiaoyan Liu,Yangchao Huang,Wenbin Li,Yufei Huang:
  PlantMiRNAPred: efficient classification of real and pseudo plant pre-miRNAs.Bioinform.27(10):1368-1376 (2011)
• 
  [j21]
  Omid Ghasemi,Merry Lindsey,Tianyi Yang,Nguyen T. Nguyen,Yufei Huang,Yufang Jin:
  Bayesian parameter estimation for nonlinear modelling of biological pathways.BMC Syst. Biol.5(S-3):S9 (2011)
• 
  [c40]
  Tzu-Hung Hsiao,Hung-I Harry Chen,Patricia C. Sanchez-Diaz,Jaclyn Y. Hung,Yidong Chen,Yufei Huang:
  Gene sets enrichment analysis of miRNA expression profile.BIBM Workshops2011:449-454
• 
  [c39]
  Chifeng Ma,Yufei Huang,Huang-I Harry,Yidong Chen:
  Comprehensive investigation of connectivity map data-towards a drug mode of action network for personalized thnerapy.BIBM Workshops2011:1045-1047
• 
  [c38]
  Mingzhu Lu,C. L. Philip Chen,Yufei Huang:
  Beyond seed match: Improving miRNA target prediction using PAR-CLIP data.GENSiPS2011:127-130
• 
  [c37]
  Dong Yue,Yidong Chen,Shou-Jiang Gao,Yufei Huang:
  Computational prediction of microRNA regulatory pathways.GENSiPS2011:158-161
• 
  [c36]
  Lin Zhang,Jia Meng,Hui Liu,Yufei Huang:
  Clustering DNA methylation expressions using nonparametric beta mixture model.GENSiPS2011:170-173
• 
  [c35]
  Jia Meng,Hung-I Chen,Jianqiu Zhang,Yidong Chen,Yufei Huang:
  Uncover cooperative gene regulations by microRNAs and transcription factors in glioblastoma using a nonnegative hybrid factor model.ICASSP2011:6012-6015
• 2010
• 
  [j20]
  Hui Liu,Dong Yue,Yidong Chen,Shou-Jiang Gao,Yufei Huang:
  Improving performance of mammalian microRNA target prediction.BMC Bioinform.11:476 (2010)
• 
  [j19]
  Jia Meng,Jianqiu (Michelle) Zhang,Yuan (Alan) Qi,Yidong Chen,Yufei Huang:
  Uncovering Transcriptional Regulatory Networks by Sparse Bayesian Factor Model.EURASIP J. Adv. Signal Process.2010 (2010)
• 
  [j18]
  Jianqiu Zhang,Xiaobo Zhou,Honghui Wang,Anthony Suffredini,Lin Zhang,Yufei Huang,Stephen T. C. Wong:
  Bayesian peptide peak detection for high resolution TOF mass spectrometry.IEEE Trans. Signal Process.58(11):5883-5894 (2010)
• 
  [c34]
  Dong Yue,Hui Liu,Mingzhu Lu,Philip Chen,Yidong Chen,Yufei Huang:
  A Bayesian decision fusion approach for microRNA target prediction.BCB2010:214-221
• 
  [c33]
  Chifeng Ma,Hung-I Harry Chen,Yufei Huang,Yidong Chen:
  Constructing a compound mode-of-action network for personalized drug effectiveness prediction.BCB2010:520-528
• 
  [c32]
  Nguyen T. Nguyen,Yufang Jin,Yufei Huang,Ying Ann Chiao,Shou-Jiang Gao,Merry Lindsey,Yidong Chen:
  Temporal clustering of gene expression patterns using short-time segments.BIBM Workshops2010:173-178
• 
  [c31]
  Jia Meng,Jianqiu Zhang,Yidong Chen,Yufei Huang:
  An Iterated Conditional Modes solution for sparse Bayesian factor modeling of transcriptional regulatory networks.BIBM2010:335-340
• 
  [c30]
  Chifeng Ma,Hung-I Harry Chen,Yufei Huang,Yidong Chen:
  A computational framework for predicting drug Mode-of-Action.BIBM Workshops2010:374-379
• 
  [c29]
  Dong Yue,Yidong Chen,Shou-Jiang Gao,Yufei Huang:
  Computational prediction of MicroRNA regulatory pathways.BIBM Workshops2010:386-391
• 
  [c28]
  Jia Meng,Jianqiu Zhang,Yidong Chen,Yufei Huang:
  An iterated conditional mode solution for Bayesian factor modeling of transcriptional regulatory networks.GENSiPS2010:1-4
• 
  [c27]
  Hui Liu,Lin Zhang,Qilong Sun,Yidong Chen,Yufei Huang:
  SysMicrO: A Novel Systems Approach for miRNA Target Prediction.ICIC (2)2010:9-16
• 
  [c26]
  Lin Zhang,Hui Liu,Dong Yue,Hui He,Yufei Huang:
  miRNA Target Prediction Method Based on the Combination of Multiple Algorithms.ICIC (1)2010:258-265

• 2009
• 
  [j17]
  Jia Meng,Shou-Jiang Gao,Yufei Huang:
  Enrichment constrained time-dependent clustering analysis for finding meaningful temporal transcription modules.Bioinform.25(12):1521-1527 (2009)
• 
  [j16]
  Travis J. Hestilow,Yufei Huang:
  Clustering of Gene Expression Data Based on Shape Similarity.EURASIP J. Bioinform. Syst. Biol.2009 (2009)
• 
  [j15]
  Erchin Serpedin,Javier Garcia-Frías,Yufei Huang,Ulisses M. Braga-Neto:
  Applications of Signal Processing Techniques to Bioinformatics, Genomics, and Proteomics.EURASIP J. Bioinform. Syst. Biol.2009 (2009)
• 
  [j14]
  Yufei Huang,Isabel M. Tienda-Luna,Yufeng Wang:
  Reverse engineering gene regulatory networks.IEEE Signal Process. Mag.26(1):76-97 (2009)
• 
  [j13]
  Tao Wei,Yufei Huang,C. L. Philip Chen:
  Adaptive Sensor Fault Detection and Identification Using Particle Filter Algorithms.IEEE Trans. Syst. Man Cybern. Part C39(2):201-213 (2009)
• 
  [c25]
  Hui Liu,Dong Yue,Yidong Chen,Yufei Huang:
  A comprehensive study of a SVM-based miRNA target prediction algorithm.GENSiPS2009:1-4
• 
  [c24]
  Yidong Chen,Hung-I Harry Chen,Yufei Huang:
  Mapping miRNA Regulation to Functional Gene Sets.IJCBS2009:122-125
• 
  [c23]
  Hui Liu,Lin Zhang,Shou-Jiang Gao,Yufei Huang:
  A Bayesian Approach for Identifying miRNA Targets by Combining Sequence Prediction and Expression Profiling.IJCBS2009:185-189
• 2008
• 
  [j12]
  Isabel M. Tienda-Luna,Yufang Yin,Yufei Huang,Diego Pablo Ruiz Padillo,Maria Carmen Carrion Perez,Yufeng Wang:
  Constructing Gene Networks Using Variational Bayesian Variable Selection.Artif. Life14(1):65-79 (2008)
• 
  [c22]
  Jianqiu Zhang,Honghui Wang,Anthony Suffredini,Denise Gonzales,Elias Gonzalez,Yufei Huang,Xiaobo Zhou:
  Bayesian peak detection for Pro-TOF MS MALDI data.ICASSP2008:661-664
• 2007
• 
  [j11]
  Isabel M. Tienda-Luna,Yufei Huang,Yufang Yin,Diego Pablo Ruiz Padillo,Maria Carmen Carrion Perez:
  Uncovering Gene Regulatory Networks from Time-Series Microarray Data with Variational Bayesian Structural Expectation Maximization.EURASIP J. Bioinform. Syst. Biol.2007 (2007)
• 
  [j10]
  Yufei Huang,Jianyin Wang,Jianqiu Zhang,Maribel Sanchez,Yufeng Wang:
  Bayesian Inference of Genetic Regulatory Networks from Time Series Microarray Data Using Dynamic Bayesian Networks.J. Multim.2(3):46-56 (2007)
• 
  [c21]
  Travis J. Hestilow,James Perez,Yufei Huang:
  Clustering Of Gene Expression Data Based On Shape Similarity.BIOCOMP2007:533-539
• 2006
• 
  [c20]
  Jiayin Wang,Yufei Huang,Maribel Sanchez,Yufeng Wang,Jianqiu (Michelle) Zhang:
  Reverse Engineering Yeast Gene Regulatory Networks using Graphical Models.ICASSP (2)2006:1088-1091
• 
  [c19]
  Tao Wei,Yufei Huang,C. L. Philip Chen:
  Particle Filtering for Adaptive Sensor Fault Detection and Identification.ICRA2006:3807-3812
• 2005
• 
  [j9]
  Yufei Huang,Jianqiu (Michelle) Zhang,Isabel M. Tienda-Luna,Petar M. Djuric,Diego Pablo Ruiz Padillo:
  Adaptive Blind Multiuser Detection over Flat Fast Fading Channels Using Particle Filtering.EURASIP J. Wirel. Commun. Netw.2005(2):130-140 (2005)
• 
  [j8]
  Yufei Huang,Jianqiu (Michelle) Zhang,Petar M. Djuric:
  Bayesian detection for BLAST.IEEE Trans. Signal Process.53(3):1086-1096 (2005)
• 
  [c18]
  Tao Wei,Yufei Huang,Philip Chen:
  Sensor validation for flight control by particle filtering.EUSIPCO2005:1-4
• 
  [c17]
  Yufei Huang,Yufang Yin,Jianqiu (Michelle) Zhang:
  Belief-directed sequential probabilistic data association multiuser detector.ICASSP (3)2005:713-716
• 
  [c16]
  Tao Wei,Yufei Huang,Yuan (Alan) Qi:
  Symbol detection with time-varying unknown phase by expectation propagation.ICASSP (3)2005:717-720
• 
  [c15]
  Ten-Huei Guo,Philip Chen,Yufei Huang:
  Remaining engine life estimation for a sensor-based aircraft engine.SMC2005:387-392
• 2004
• 
  [j7]
  Yufei Huang,Petar M. Djuric:
  A hybrid importance function for particle filtering.IEEE Signal Process. Lett.11(3):404-406 (2004)
• 
  [j6]
  Yufei Huang,Petar M. Djuric:
  A blind particle filtering detector of signals transmitted over flat fading channels.IEEE Trans. Signal Process.52(7):1891-1900 (2004)
• 
  [c14]
  Yufei Huang,Jianqiu (Michelle) Zhang,Isabel M. Tienda-Luna,Petar M. Djuric,Diego Pablo Ruiz Padillo:
  Adaptive blind multiuser detection over flat fast fading channels using particle filtering.GLOBECOM2004:2419-2423
• 
  [c13]
  Yufang Yin,Yufei Huang,Jianqiu (Michelle) Zhang:
  Turbo equalization using probabilistic data association.GLOBECOM2004:2535-2539
• 
  [c12]
  Yufang Yin,Yufei Huang,Jianqiu (Michelle) Zhang:
  Joint symbol detection and timing estimation with stochastic M-algorithm.ICASSP (4)2004:845-848
• 
  [c11]
  Yufei Huang,Jianqiu (Michelle) Zhang:
  A generalized probabilistic data association multiuser detector.ISIT2004
• 2003
• 
  [j5]
  Petar M. Djuric,Jayesh H. Kotecha,Jianqui Zhang,Yufei Huang,Tadesse Ghirmai,Mónica F. Bugallo,Joaquín Míguez:
  Particle filtering.IEEE Signal Process. Mag.20(5):19-38 (2003)
• 
  [c10]
  Yufei Huang,Petar M. Djuric,Jianqiu (Michelle) Zhang:
  Joint velocity estimation and symbol detection in non-stationary fading channels by particle filtering.GLOBECOM2003:2269-2273
• 
  [c9]
  Yufei Huang,Jianqiu (Michelle) Zhang:
  Lower bounds on the variance of deterministic signal parameter estimators using Bayesian inference.ICASSP (6)2003:745-748
• 
  [c8]
  Yufei Huang,Jianqiu Zhang,Petar M. Djuric:
  Detection with particle filtering in BLAST systems.ICC2003:2306-2310
• 2002
• 
  [j4]
  Yufei Huang,Petar M. Djuric:
  Variable Selection by Perfect Sampling.EURASIP J. Adv. Signal Process.2002(1):38-45 (2002)
• 
  [j3]
  Petar M. Djuric,Yufei Huang,Tadesse Ghirmai:
  Perfect sampling: a review and applications to signal processing.IEEE Trans. Signal Process.50(2):345-356 (2002)
• 
  [j2]
  Yufei Huang,Petar M. Djuric:
  Multiuser detection of synchronous code-division multiple-access signals by perfect sampling.IEEE Trans. Signal Process.50(7):1724-1734 (2002)
• 
  [c7]
  Petar M. Djuric,Jianqiu Zhang,Tadesse Ghirmai,Yufei Huang,Jayesh H. Kotecha:
  Applications of particle filtering to communications: A review.EUSIPCO2002:1-4
• 
  [c6]
  Yufei Huang,Petar M. Djuric:
  A blind particle filtering detector for joint channel estimation, tracking and data detection over flat fading channels.EUSIPCO2002:1-4
• 
  [c5]
  Jianqiu Zhang,Yufei Huang,Petar M. Djuric:
  Multiuser detection with particle filtering.EUSIPCO2002:1-4
• 
  [c4]
  Yufei Huang,Petar M. Djuric:
  A new importance function for particle filtering and its application to blind detection in flat fading channels.ICASSP2002:1617-1620
• 2001
• 
  [c3]
  Yufei Huang,Petar M. Djuric:
  Multiuser detection of synchronous CDMA signals by the Gibbs coupler.ICASSP2001:2273-2276
• 2000
• 
  [j1]
  Petar M. Djuric,Yufei Huang:
  Estimation of a Bernoulli parameter p from imperfect trials.IEEE Signal Process. Lett.7(6):160-163 (2000)
• 
  [c2]
  Yufei Huang,Petar M. Djuric:
  Choosing priors for an important class of signal processing problems.EUSIPCO2000:1-4
• 
  [c1]
  Yufei Huang,Petar M. Djuric:
  Bayesian detection of transient signals in colored noise.ICASSP2000:725-728

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