Jun S. Liu

Publication Activity (10 Years)

Years Active: 1994-2024
Publications (10 Years): 29

Top Topics

Gaussian Process

Statistical Inference

Top Venues

J. Mach. Learn. Res.

Publications

Xufei Wang, Bo Jiang, Jun S. Liu
Varying Coefficient Model via Adaptive Spline Fitting. J. Comput. Graph. Stat. 33 (2) (2024)
Taehee Lee, Jun S. Liu
Multi-Response Heteroscedastic Gaussian Process Models and Their Inference. CoRR (2023)
Xiaodong Yang, Jun S. Liu
Convergence rate of multiple-try Metropolis independent sampler. Stat. Comput. 33 (4) (2023)
Shuang Song, Lin Hou, Jun S. Liu
A data-adaptive Bayesian regression approach for polygenic risk prediction. Bioinform. 38 (7) (2022)
Shuang Song, Lin Hou, Jun S. Liu
Erratum to: A data-adaptive Bayesian regression approach for polygenic risk prediction. Bioinform. 38 (7) (2022)
Shuang Song, Nayang Shan, Geng Wang, Xiting Yan, Jun S. Liu, Lin Hou
Openness weighted association studies: leveraging personal genome information to prioritize non-coding variants. Bioinform. 37 (24) (2021)
Pan Wang, Qi Li, Nan Sun, Yibo Gao, Jun S. Liu, Ke Deng, Jie He
MiRACLe: an individual-specific approach to improve microRNA-target prediction based on a random contact model. Briefings Bioinform. 22 (3) (2021)
Feifei Wang, Junni L. Zhang, Yichao Li, Ke Deng, Jun S. Liu
Bayesian Text Classification and Summarization via A Class-Specified Topic Model. J. Mach. Learn. Res. 22 (2021)
Zhendong Liu, Gang Li, Jun S. Liu
New Algorithms in RNA Structure Prediction Based on BHG. Int. J. Pattern Recognit. Artif. Intell. 34 (13) (2020)
Xin Xing, Yu Gui, Chenguang Dai, Jun S. Liu
Neural Gaussian Mirror for Controlled Feature Selection in Neural Networks. CoRR (2020)
Zhirui Hu, Zheng Tracy Ke, Jun S. Liu
Measurement error models: from nonparametric methods to deep neural networks. CoRR (2020)
Xin Xing, Long Sha, Pengyu Hong, Zuofeng Shang, Jun S. Liu
Probabilistic Connection Importance Inference and Lossless Compression of Deep Neural Networks. ICLR (2020)
Xin Xing, Yu Gui, Chenguang Dai, Jun S. Liu
NGM: Neural Gaussian Mirror for Controlled Feature Selection in Neural Networks. ICMLA (2020)
Rongrong Zhang, Ming Hu, Yu Zhu, Zhaohui S. Qin, Ke Deng, Jun S. Liu
Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model. IEEE ACM Trans. Comput. Biol. Bioinform. 17 (2) (2020)
Ruzhang Zhao, Pengyu Hong, Jun S. Liu
IMMIGRATE: A Margin-Based Feature Selection Method with Interaction Terms. Entropy 22 (3) (2020)
Minsuk Shin, Young Lee, Jun S. Liu
Generative Parameter Sampler For Scalable Uncertainty Quantification. CoRR (2019)
Yifan Zhang, William Yang, Jun S. Liu, Mary Qu Yang
Characterizing Mutually Exclusive Driver Mutations in Pan-Cancer. BIBM (2019)
Chenguang Dai, Jun S. Liu
The Wang-Landau Algorithm as Stochastic Optimization and its Acceleration. CoRR (2019)
Shihao Yang, Yang Chen, Espen Bernton, Jun S. Liu
On parallelizable Markov chain Monte Carlo algorithms with waste-recycling. Stat. Comput. 28 (5) (2018)
Dan Li, William Yang, Carolyn Arthur, Jun S. Liu, Carolina Cruz-Niera, Mary Qu Yang
Systems biology analysis reveals new insights into invasive lung cancer. BMC Syst. Biol. 12 (7) (2018)
Ruzhang Zhao, Pengyu Hong, Jun S. Liu
IMMIGRATE: A Margin-based Feature Selection Method with Interaction Terms. CoRR (2018)
Xu Han, Hongsu Wang, Sanqian Zhang, Qunchao Fu, Jun S. Liu
Sentence Segmentation for Classical Chinese Based on LSTM with Radical Embedding. CoRR (2018)
Guannan He, Yanchun Liang, Yan Chen, William Yang, Jun S. Liu, Mary Qu Yang, Renchu Guan
A hotspots analysis-relation discovery representation model for revealing diabetes mellitus and obesity. BMC Syst. Biol. 12 (7) (2018)
Guannan He, Yanchun Liang, Yan Chen, William Yang, Jun S. Liu, Mary Qu Yang, Renchu Guan
Relation discovery and hotspots analysis on diabetes mellitus and obesity with representation model. BIBM (2017)
Yang Li, Alexis A. Jourdain, Sarah E. Calvo, Jun S. Liu, Vamsi K. Mootha
CLIC, a tool for expanding biological pathways based on co-expression across thousands of datasets. PLoS Comput. Biol. 13 (7) (2017)
Matey Neykov, Jun S. Liu, Tianxi Cai
On the Characterization of a Class of Fisher-Consistent Loss Functions and its Application to Boosting. J. Mach. Learn. Res. 17 (2016)
Xiaoxiao Sun, David Dalpiaz, Di Wu, Jun S. Liu, Wenxuan Zhong, Ping Ma
Statistical inference for time course RNA-Seq data using a negative binomial mixed-effect model. BMC Bioinform. 17 (2016)
Mulin Jun Li, Zhicheng Pan, Zipeng Liu, Jiexing Wu, Panwen Wang, Yun Zhu, Feng Xu, Zhengyuan Xia, Pak Chung Sham, Jean-Pierre A. Kocher, Miao-Xin Li, Jun S. Liu, Junwen Wang
Predicting regulatory variants with composite statistic. Bioinform. 32 (18) (2016)
Matey Neykov, Jun S. Liu, Tianxi Cai
L1-Regularized Least Squares for Support Recovery of High Dimensional Single Index Models with Gaussian Designs. J. Mach. Learn. Res. 17 (2016)
Ke Tang, Samuel W. K. Wong, Jun S. Liu, Jinfeng Zhang, Jie Liang
-barrel membrane proteins using multi-loop distance-guided chain-growth Monte Carlo method. Bioinform. 31 (16) (2015)
Chao Ye, Bo Jiang, Xuegong Zhang, Jun S. Liu
dslice: an R package for nonparametric testing of associations with application in QTL and gene set analysis. Bioinform. 31 (11) (2015)
William Yang, Kenji Yoshigoe, Xiang Qin, Jun S. Liu, Jack Y. Yang, Andrzej Niemierko, Youping Deng, Yunlong Liu, A. Keith Dunker, Zhongxue Chen, Liangjiang Wang, Dong Xu, Hamid R. Arabnia, Weida Tong, Mary Qu Yang
Identification of genes and pathways involved in kidney renal clear cell carcinoma. BMC Bioinform. 15 (S-17) (2014)
Jack Y. Yang, A. Keith Dunker, Jun S. Liu, Xiang Qin, Hamid R. Arabnia, William Yang, Andrzej Niemierko, Zhongxue Chen, Zuojie Luo, Liangjiang Wang, Yunlong Liu, Dong Xu, Youping Deng, Weida Tong, Mary Qu Yang
Advances in translational bioinformatics facilitate revealing the landscape of complex disease mechanisms. BMC Bioinform. 15 (S-17) (2014)
Bo Jiang, Jun S. Liu, Martha L. Bulyk
-mers. Bioinform. 29 (11) (2013)
Rajesh Chowdhary, Jinfeng Zhang, Sin Lam Tan, Daniel E. Osborne, Vladimir B. Bajic, Jun S. Liu
PIMiner: a web tool for extraction of protein interactions from biomedical literature. Int. J. Data Min. Bioinform. 7 (4) (2013)
Ming Hu, Ke Deng, Zhaohui S. Qin, Jun S. Liu
Understanding spatial organizations of chromosomes via statistical analysis of Hi-C data. Quant. Biol. 1 (2) (2013)
Ming Hu, Ke Deng, Zhaohui S. Qin, Jesse R. Dixon, Siddarth Selvaraj, Jennifer Fang, Bing Ren, Jun S. Liu
Bayesian Inference of Spatial Organizations of Chromosomes. PLoS Comput. Biol. 9 (1) (2013)
Jianxing Feng, Clifford A. Meyer, Qian Wang, Jun S. Liu, Xiaole Shirley Liu, Yong Zhang
GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data. Bioinform. 28 (21) (2012)
Ke Deng, Yang Li, Weiping Zhu, Zhi Geng, Jun S. Liu
On Delay Tomography: Fast Algorithms and Spatially Dependent Models. IEEE Trans. Signal Process. 60 (11) (2012)
Ming Hu, Ke Deng, Siddarth Selvaraj, Zhaohui S. Qin, Bing Ren, Jun S. Liu
HiCNorm: removing biases in Hi-C data via Poisson regression. Bioinform. 28 (23) (2012)
Ming Hu, Yu Zhu, Jeremy M. G. Taylor, Jun S. Liu, Zhaohui S. Qin
Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq. Bioinform. 28 (1) (2012)
Sentil Balaji, Charles Mcclendon, Rajesh Chowdhary, Jun S. Liu, Jinfeng Zhang
IMID: integrated molecular interaction database. Bioinform. 28 (5) (2012)
Wei Zhang, Jun Zhu, Eric E. Schadt, Jun S. Liu
A Bayesian Partition Method for Detecting Pleiotropic and Epistatic eQTL Modules. PLoS Comput. Biol. 6 (1) (2010)
Hanchang Sun, Yuan Yuan, Yibo Wu, Hui Liu, Jun S. Liu, Hongwei Xie
Tmod: toolbox of motif discovery. Bioinform. 26 (3) (2010)
Rajesh Chowdhary, Vladimir B. Bajic, Difeng Dong, Limsoon Wong, Jun S. Liu
Genome-wide analysis of regions similar to promoters of histone genes. BMC Syst. Biol. 4 (S-1) (2010)
Patrycja Vasilyev Missiuro, Kesheng Liu, Lihua Zou, Brian C. Ross, Guoyan Zhao, Jun S. Liu, Hui Ge
Information Flow Analysis of Interactome Networks. PLoS Comput. Biol. 5 (4) (2009)
Rajesh Chowdhary, Jinfeng Zhang, Jun S. Liu
Bayesian inference of protein-protein interactions from biological literature. Bioinform. 25 (12) (2009)
Guo-Cheng Yuan, Jun S. Liu
Genomic Sequence Is Highly Predictive of Local Nucleosome Depletion. PLoS Comput. Biol. 4 (1) (2008)
Lihua Zou, Sira Sriswasdi, Brian C. Ross, Patrycja Vasilyev Missiuro, Jun S. Liu, Hui Ge
Early Embryogenesis. PLoS Comput. Biol. 4 (2) (2008)
Dongsheng Che, Guojun Li, Shane T. Jensen, Jun S. Liu, Ying Xu
PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes. ISBRA (2008)
Jiajun Gu, Jun S. Liu
Bayesian Biclustering of Microarray Data. BIOCOMP (2007)
Yuan Yuan, Lei Guo, Lei Shen, Jun S. Liu
Predicting Gene Expression from Sequence: A Reexamination. PLoS Comput. Biol. 3 (11) (2007)
Guo-Cheng Yuan, Jun S. Liu
Statistial Analysis of nucleosome occupancy and histone modification data. BIBE (2007)
Gopi Goswami, Jun S. Liu
On learning strategies for evolutionary Monte Carlo. Stat. Comput. 17 (1) (2007)
Xiaodan Fan, Jun Zhu, Eric E. Schadt, Jun S. Liu
Statistical power of phylo-HMM for evolutionarily conserved element detection. BMC Bioinform. 8 (2007)
Jinfeng Zhang, Jun S. Liu
On Side-Chain Conformational Entropy of Proteins. PLoS Comput. Biol. 2 (12) (2006)
Xuegong Zhang, Xin Lu, Qian Shi, Xiu-qin Xu, Hon-chiu E. Leung, Lyndsay N. Harris, James D. Iglehart, Alexander Miron, Jun S. Liu, Wing Hung Wong
Recursive SVM feature selection and sample classification for mass-spectrometry and microarray data. BMC Bioinform. 7 (2006)
Erin M. Conlon, Joon J. Song, Jun S. Liu
Bayesian models for pooling microarray studies with multiple sources of replications. BMC Bioinform. 7 (2006)
Pengyu Hong, Xiaole Shirley Liu, Qing Zhou, Xin Lu, Jun S. Liu, Wing Hung Wong
A boosting approach for motif modeling using ChIP-chip data. Bioinform. 21 (11) (2005)
Dongsheng Che, Shane T. Jensen, Liming Cai, Jun S. Liu
BEST: Binding-site Estimation Suite of Tools. Bioinform. 21 (12) (2005)
Kui Zhang, Zhaohui S. Qin, Ting Chen, Jun S. Liu, Michael S. Waterman, Fengzhu Sun
HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms. Bioinform. 21 (1) (2005)
Wenxuan Zhong, Peng Zeng, Ping Ma, Jun S. Liu, Michael Yu Zhu
RSIR: regularized sliced inverse regression for motif discovery. Bioinform. 21 (22) (2005)
Shane T. Jensen, Lei Shen, Jun S. Liu
Combining phylogenetic motif discovery and motif clustering to predict co-regulated genes. Bioinform. 21 (20) (2005)
Haiyan Huang, Ming-Chih J. Kao, Xianghong Jasmine Zhou, Jun S. Liu, Wing Hung Wong
Determination of Local Statistical Significance of Patterns in Markov Sequences with Application to Promoter Element Identification. J. Comput. Biol. 11 (1) (2004)
Shane T. Jensen, Jun S. Liu
BioOptimizer: a Bayesian scoring function approach to motif discovery. Bioinform. 20 (10) (2004)
Yueyi Liu, Liping Wei, Serafim Batzoglou, Douglas L. Brutlag, Jun S. Liu, Xiaole Shirley Liu
A suite of web-based programs to search for transcriptional regulatory motifs. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Qing Zhou, Jun S. Liu
Modeling within-motif dependence for transcription factor binding site predictions. Bioinform. 20 (6) (2004)
Andrew F. Neuwald, Jun S. Liu
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model. BMC Bioinform. 5 (2004)
Xin Lu, Wen Zhang, Zhaohui S. Qin, Jun S. Liu
Statistical Resynchronization and Detection of Periodic Transcripts. CSB (2003)
Jun S. Liu
BPPS: An Algorithm for Analyzing Protein Sequence Alignments. CSB (2003)
Kui Zhang, Ting Chen, Michael S. Waterman, Zhaohui S. Qin, Jun S. Liu, Fengzhu Sun
Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data. Computational Methods for SNPs and Haplotype Inference (2002)
Xiaodong Wang, Rong Chen, Jun S. Liu
Monte Carlo Bayesian Signal Processing for Wireless Communications. J. VLSI Signal Process. 30 (1-3) (2002)
Tianhua Niu, Xin Lu, Hosung Kang, Zhaohui S. Qin, Jun S. Liu
Haplotype Inference and Its Application in Linkage Disequilibrium Mapping. Computational Methods for SNPs and Haplotype Inference (2002)
Rong Chen, Jun S. Liu, Xiaodong Wang
Convergence analyses and comparisons of Markov chain Monte Carlo algorithms in digital communications. IEEE Trans. Signal Process. 50 (2) (2002)
X. Liu, Douglas L. Brutlag, Jun S. Liu
BioProspector: Discovering Conserved DNA Motifs in Upstream Regulatory Regions of Co-Expressed Genes. Pacific Symposium on Biocomputing (2001)
Jason Cong, Tianming Kong, Faming Liang, Jun S. Liu, Wing Hung Wong, Dongmin Xu
Dynamic weighting Monte Carlo for constrained floorplan designs in mixed signal application. ASP-DAC (2000)
Rong Chen, Xiaodong Wang, Jun S. Liu
Adaptive joint detection and decoding in flat-fading channels via mixture Kalman filtering. IEEE Trans. Inf. Theory 46 (6) (2000)
Scott C. Schmidler, Jun S. Liu, Douglas L. Brutlag
Bayesian Segmentation of Protein Secondary Structure. J. Comput. Biol. 7 (1-2) (2000)
Jason Cong, Tianming Kong, Dongmin Xu, Faming Liang, Jun S. Liu, Wing Hung Wong
Relaxed Simulated Tempering for VLSI Floorplan Designs. ASP-DAC (1999)
Jun S. Liu, Charles E. Lawrence
Bayesian inference on biopolymer models. Bioinform. 15 (1) (1999)
Jun Zhu, Jun S. Liu, Charles E. Lawrence
Bayesian adaptive sequence alignment algorithms. Bioinform. 14 (1) (1998)
Jun Zhu, Jun S. Liu, Charles E. Lawrence
Bayesian Adaptive Alignment and Inference. ISMB (1997)
Jun S. Liu
Metropolized independent sampling with comparisons to rejection sampling and importance sampling. Stat. Comput. 6 (2) (1996)
Charles E. Lawrence, Stephen F. Altschul, John C. Wootton, Mark S. Boguski, Andrew F. Neuwald, Jun S. Liu
A Gibbs Sampler for the Detection of Subtle Motifs in Multiple Sequences. HICSS (5) (1994)