Jun S. Liu

92 papers A* 1A 1C 2Misc 1Journal 74Unranked 11
YearRankTypeTitle / Venue / Authors
2026 J jnl
TFTF: Training-Free Targeted Flow for Conditional Sampling.
CoRR
Qianqian Qu, Jun S. Liu
2025 J jnl
Monotone Cubic B-Splines with a Neural-Network Generator.
J. Comput. Graph. Stat.
Lijun Wang, Xiaodan Fan, Huabai Li, Jun S. Liu
2024 J jnl
A phylogenetic method linking nucleotide substitution rates to rates of continuous trait evolution.
PLoS Comput. Biol.
Patrick Gemmell, Timothy B. Sackton, Scott V. Edwards, Jun S. Liu
2024 J jnl
Generative Multi-Purpose Sampler for Weighted M-estimation.
J. Comput. Graph. Stat.
Minsuk Shin, Shijie Wang, Jun S. Liu
2024 J jnl
Power of knockoff: The impact of ranking algorithm, augmented design, and symmetric statistic.
J. Mach. Learn. Res.
Zheng Tracy Ke, Jun S. Liu, Yucong Ma
2024 J jnl
Towards a Statistical Understanding of Neural Networks: Beyond the Neural Tangent Kernel Theories.
CoRR
Haobo Zhang, Jianfa Lai, Yicheng Li, Qian Lin, Jun S. Liu
2024 J jnl
Varying Coefficient Model via Adaptive Spline Fitting.
J. Comput. Graph. Stat.
Xufei Wang, Bo Jiang, Jun S. Liu
2023 J jnl
Convergence rate of multiple-try Metropolis independent sampler.
Stat. Comput.
Xiaodong Yang, Jun S. Liu
2023 J jnl
Multi-Response Heteroscedastic Gaussian Process Models and Their Inference.
CoRR
Taehee Lee, Jun S. Liu
2022 J jnl
A data-adaptive Bayesian regression approach for polygenic risk prediction.
Bioinform.
Shuang Song, Lin Hou, Jun S. Liu
2022 J jnl
Erratum to: A data-adaptive Bayesian regression approach for polygenic risk prediction.
Bioinform.
Shuang Song, Lin Hou, Jun S. Liu
2021 J jnl
Bayesian Text Classification and Summarization via A Class-Specified Topic Model.
J. Mach. Learn. Res.
Feifei Wang, Junni L. Zhang, Yichao Li, Ke Deng, Jun S. Liu
2021 J jnl
MiRACLe: an individual-specific approach to improve microRNA-target prediction based on a random contact model.
Briefings Bioinform.
Pan Wang, Qi Li, Nan Sun, Yibo Gao, Jun S. Liu, Ke Deng, Jie He
2021 J jnl
Openness weighted association studies: leveraging personal genome information to prioritize non-coding variants.
Bioinform.
Shuang Song, Nayang Shan, Geng Wang, Xiting Yan, Jun S. Liu, Lin Hou
2020 J jnl
IMMIGRATE: A Margin-Based Feature Selection Method with Interaction Terms.
Entropy
Ruzhang Zhao, Pengyu Hong, Jun S. Liu
2020 J jnl
Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model.
IEEE ACM Trans. Comput. Biol. Bioinform.
Rongrong Zhang, Ming Hu, Yu Zhu, Zhaohui S. Qin, Ke Deng, Jun S. Liu
2020 J jnl
Measurement error models: from nonparametric methods to deep neural networks.
CoRR
Zhirui Hu, Zheng Tracy Ke, Jun S. Liu
2020 C conf
NGM: Neural Gaussian Mirror for Controlled Feature Selection in Neural Networks.
ICMLA
Xin Xing, Yu Gui, Chenguang Dai, Jun S. Liu
2020 J jnl
Neural Gaussian Mirror for Controlled Feature Selection in Neural Networks.
CoRR
Xin Xing, Yu Gui, Chenguang Dai, Jun S. Liu
2020 J jnl
New Algorithms in RNA Structure Prediction Based on BHG.
Int. J. Pattern Recognit. Artif. Intell.
Zhendong Liu, Gang Li, Jun S. Liu
2020 A* conf
Probabilistic Connection Importance Inference and Lossless Compression of Deep Neural Networks.
ICLR
Xin Xing, Long Sha, Pengyu Hong, Zuofeng Shang, Jun S. Liu
2019 — conf
Characterizing Mutually Exclusive Driver Mutations in Pan-Cancer.
BIBM
Yifan Zhang, William Yang, Jun S. Liu, Mary Qu Yang
2019 J jnl
Generative Parameter Sampler For Scalable Uncertainty Quantification.
CoRR
Minsuk Shin, Young Lee, Jun S. Liu
2019 J jnl
The Wang-Landau Algorithm as Stochastic Optimization and its Acceleration.
CoRR
Chenguang Dai, Jun S. Liu
2018 J jnl
A hotspots analysis-relation discovery representation model for revealing diabetes mellitus and obesity.
BMC Syst. Biol.
Guannan He, Yanchun Liang, Yan Chen, William Yang, Jun S. Liu, Mary Qu Yang, Renchu Guan
2018 J jnl
IMMIGRATE: A Margin-based Feature Selection Method with Interaction Terms.
CoRR
Ruzhang Zhao, Pengyu Hong, Jun S. Liu
2018 J jnl
On parallelizable Markov chain Monte Carlo algorithms with waste-recycling.
Stat. Comput.
Shihao Yang, Yang Chen, Espen Bernton, Jun S. Liu
2018 J jnl
Sentence Segmentation for Classical Chinese Based on LSTM with Radical Embedding.
CoRR
Xu Han, Hongsu Wang, Sanqian Zhang, Qunchao Fu, Jun S. Liu
2018 J jnl
Systems biology analysis reveals new insights into invasive lung cancer.
BMC Syst. Biol.
Dan Li, William Yang, Carolyn Arthur, Jun S. Liu, Carolina Cruz-Niera, Mary Qu Yang
2017 J jnl
CLIC, a tool for expanding biological pathways based on co-expression across thousands of datasets.
PLoS Comput. Biol.
Yang Li, Alexis A. Jourdain, Sarah E. Calvo, Jun S. Liu, Vamsi K. Mootha
2017 — conf
Relation discovery and hotspots analysis on diabetes mellitus and obesity with representation model.
BIBM
Guannan He, Yanchun Liang, Yan Chen, William Yang, Jun S. Liu, Mary Qu Yang, Renchu Guan
2016 J jnl
L1-Regularized Least Squares for Support Recovery of High Dimensional Single Index Models with Gaussian Designs.
J. Mach. Learn. Res.
Matey Neykov, Jun S. Liu, Tianxi Cai
2016 J jnl
On the Characterization of a Class of Fisher-Consistent Loss Functions and its Application to Boosting.
J. Mach. Learn. Res.
Matey Neykov, Jun S. Liu, Tianxi Cai
2016 J jnl
Predicting regulatory variants with composite statistic.
Bioinform.
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
2016 J jnl
Statistical inference for time course RNA-Seq data using a negative binomial mixed-effect model.
BMC Bioinform.
Xiaoxiao Sun, David Dalpiaz, Di Wu, Jun S. Liu, Wenxuan Zhong, Ping Ma
2015 J jnl
Conformational sampling and structure prediction of multiple interacting loops in soluble and
Bioinform.
Ke Tang, Samuel W. K. Wong, Jun S. Liu, Jinfeng Zhang, Jie Liang
2015 J jnl
dslice: an R package for nonparametric testing of associations with application in QTL and gene set analysis.
Bioinform.
Chao Ye, Bo Jiang, Xuegong Zhang, Jun S. Liu
2014 J jnl
Advances in translational bioinformatics facilitate revealing the landscape of complex disease mechanisms.
BMC Bioinform.
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
2014 J jnl
Identification of genes and pathways involved in kidney renal clear cell carcinoma.
BMC Bioinform.
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
2013 J jnl
Bayesian Inference of Spatial Organizations of Chromosomes.
PLoS Comput. Biol.
Ming Hu, Ke Deng, Zhaohui S. Qin, Jesse R. Dixon, Siddarth Selvaraj, Jennifer Fang, Bing Ren, Jun S. Liu
2013 J jnl
Bayesian hierarchical model of protein-binding microarray
Bioinform.
Bo Jiang, Jun S. Liu, Martha L. Bulyk
2013 J jnl
PIMiner: a web tool for extraction of protein interactions from biomedical literature.
Int. J. Data Min. Bioinform.
Rajesh Chowdhary, Jinfeng Zhang, Sin Lam Tan, Daniel E. Osborne, Vladimir B. Bajic, Jun S. Liu
2013 J jnl
Understanding spatial organizations of chromosomes via statistical analysis of Hi-C data.
Quant. Biol.
Ming Hu, Ke Deng, Zhaohui S. Qin, Jun S. Liu
2012 J jnl
GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data.
Bioinform.
Jianxing Feng, Clifford A. Meyer, Qian Wang, Jun S. Liu, Xiaole Shirley Liu, Yong Zhang
2012 J jnl
HiCNorm: removing biases in Hi-C data via Poisson regression.
Bioinform.
Ming Hu, Ke Deng, Siddarth Selvaraj, Zhaohui S. Qin, Bing Ren, Jun S. Liu
2012 J jnl
IMID: integrated molecular interaction database.
Bioinform.
Sentil Balaji, Charles Mcclendon, Rajesh Chowdhary, Jun S. Liu, Jinfeng Zhang
2012 J jnl
On Delay Tomography: Fast Algorithms and Spatially Dependent Models.
IEEE Trans. Signal Process.
Ke Deng, Yang Li, Weiping Zhu, Zhi Geng, Jun S. Liu
2012 J jnl
Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq.
Bioinform.
Ming Hu, Yu Zhu, Jeremy M. G. Taylor, Jun S. Liu, Zhaohui S. Qin
2011 — ch.
Statistical Learning and Modeling of TF-DNA Binding.
Handbook of Statistical Bioinformatics
Bo Jiang, Jun S. Liu
2010 J jnl
A Bayesian Partition Method for Detecting Pleiotropic and Epistatic eQTL Modules.
PLoS Comput. Biol.
Wei Zhang, Jun Zhu, Eric E. Schadt, Jun S. Liu
2010 J jnl
Genome-wide analysis of regions similar to promoters of histone genes.
BMC Syst. Biol.
Rajesh Chowdhary, Vladimir B. Bajic, Difeng Dong, Limsoon Wong, Jun S. Liu
2010 J jnl
Tmod: toolbox of motif discovery.
Bioinform.
Hanchang Sun, Yuan Yuan, Yibo Wu, Hui Liu, Jun S. Liu, Hongwei Xie
2009 J jnl
Bayesian inference of protein-protein interactions from biological literature.
Bioinform.
Rajesh Chowdhary, Jinfeng Zhang, Jun S. Liu
2009 J jnl
Information Flow Analysis of Interactome Networks.
PLoS Comput. Biol.
Patrycja Vasilyev Missiuro, Kesheng Liu, Lihua Zou, Brian C. Ross, Guoyan Zhao, Jun S. Liu, Hui Ge
2008 J jnl
Genomic Sequence Is Highly Predictive of Local Nucleosome Depletion.
PLoS Comput. Biol.
Guo-Cheng Yuan, Jun S. Liu
2008 — conf
PFP: A Computational Framework for Phylogenetic Footprinting in Prokaryotic Genomes.
ISBRA
Dongsheng Che, Guojun Li, Shane T. Jensen, Jun S. Liu, Ying Xu
2008 J jnl
Systematic Analysis of Pleiotropy in
PLoS Comput. Biol.
Lihua Zou, Sira Sriswasdi, Brian C. Ross, Patrycja Vasilyev Missiuro, Jun S. Liu, Hui Ge
2007 — conf
Bayesian Biclustering of Microarray Data.
BIOCOMP
Jiajun Gu, Jun S. Liu
2007 J jnl
On learning strategies for evolutionary Monte Carlo.
Stat. Comput.
Gopi Goswami, Jun S. Liu
2007 J jnl
Predicting Gene Expression from Sequence: A Reexamination.
PLoS Comput. Biol.
Yuan Yuan, Lei Guo, Lei Shen, Jun S. Liu
2007 C conf
Statistial Analysis of nucleosome occupancy and histone modification data.
BIBE
Guo-Cheng Yuan, Jun S. Liu
2007 J jnl
Statistical power of phylo-HMM for evolutionarily conserved element detection.
BMC Bioinform.
Xiaodan Fan, Jun Zhu, Eric E. Schadt, Jun S. Liu
2006 J jnl
Bayesian models for pooling microarray studies with multiple sources of replications.
BMC Bioinform.
Erin M. Conlon, Joon J. Song, Jun S. Liu
2006 J jnl
On Side-Chain Conformational Entropy of Proteins.
PLoS Comput. Biol.
Jinfeng Zhang, Jun S. Liu
2006 J jnl
Recursive SVM feature selection and sample classification for mass-spectrometry and microarray data.
BMC Bioinform.
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
2005 J jnl
A boosting approach for motif modeling using ChIP-chip data.
Bioinform.
Pengyu Hong, Xiaole Shirley Liu, Qing Zhou, Xin Lu, Jun S. Liu, Wing Hung Wong
2005 J jnl
BEST: Binding-site Estimation Suite of Tools.
Bioinform.
Dongsheng Che, Shane T. Jensen, Liming Cai, Jun S. Liu
2005 J jnl
Combining phylogenetic motif discovery and motif clustering to predict co-regulated genes.
Bioinform.
Shane T. Jensen, Lei Shen, Jun S. Liu
2005 J jnl
HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms.
Bioinform.
Kui Zhang, Zhaohui S. Qin, Ting Chen, Jun S. Liu, Michael S. Waterman, Fengzhu Sun
2005 J jnl
RSIR: regularized sliced inverse regression for motif discovery.
Bioinform.
Wenxuan Zhong, Peng Zeng, Ping Ma, Jun S. Liu, Michael Yu Zhu
2004 J jnl
A suite of web-based programs to search for transcriptional regulatory motifs.
Nucleic Acids Res.
Yueyi Liu, Liping Wei, Serafim Batzoglou, Douglas L. Brutlag, Jun S. Liu, Xiaole Shirley Liu
2004 J jnl
BioOptimizer: a Bayesian scoring function approach to motif discovery.
Bioinform.
Shane T. Jensen, Jun S. Liu
2004 J jnl
Determination of Local Statistical Significance of Patterns in Markov Sequences with Application to Promoter Element Identification.
J. Comput. Biol.
Haiyan Huang, Ming-Chih J. Kao, Xianghong Jasmine Zhou, Jun S. Liu, Wing Hung Wong
2004 J jnl
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model.
BMC Bioinform.
Andrew F. Neuwald, Jun S. Liu
2004 J jnl
Modeling within-motif dependence for transcription factor binding site predictions.
Bioinform.
Qing Zhou, Jun S. Liu
2003 — conf
BPPS: An Algorithm for Analyzing Protein Sequence Alignments.
CSB
Jun S. Liu
2003 — conf
Statistical Resynchronization and Detection of Periodic Transcripts.
CSB
Xin Lu, Wen Zhang, Zhaohui S. Qin, Jun S. Liu
2002 J jnl
Convergence analyses and comparisons of Markov chain Monte Carlo algorithms in digital communications.
IEEE Trans. Signal Process.
Rong Chen, Jun S. Liu, Xiaodong Wang
2002 — conf
Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data.
Computational Methods for SNPs and Haplotype Inference
Kui Zhang, Ting Chen, Michael S. Waterman, Zhaohui S. Qin, Jun S. Liu, Fengzhu Sun
2002 — conf
Haplotype Inference and Its Application in Linkage Disequilibrium Mapping.
Computational Methods for SNPs and Haplotype Inference
Tianhua Niu, Xin Lu, Hosung Kang, Zhaohui S. Qin, Jun S. Liu
2002 J jnl
Monte Carlo Bayesian Signal Processing for Wireless Communications.
J. VLSI Signal Process.
Xiaodong Wang, Rong Chen, Jun S. Liu
2001 — ch.
A Theoretical Framework for Sequential Importance Sampling with Resampling.
Sequential Monte Carlo Methods in Practice
Jun S. Liu, Rong Chen, Tanya Logvinenko
2001 Misc conf
BioProspector: Discovering Conserved DNA Motifs in Upstream Regulatory Regions of Co-Expressed Genes.
Pacific Symposium on Biocomputing
X. Liu, Douglas L. Brutlag, Jun S. Liu
2000 J jnl
Adaptive joint detection and decoding in flat-fading channels via mixture Kalman filtering.
IEEE Trans. Inf. Theory
Rong Chen, Xiaodong Wang, Jun S. Liu
2000 J jnl
Bayesian Segmentation of Protein Secondary Structure.
J. Comput. Biol.
Scott C. Schmidler, Jun S. Liu, Douglas L. Brutlag
2000 — conf
Dynamic weighting Monte Carlo for constrained floorplan designs in mixed signal application.
ASP-DAC
Jason Cong, Tianming Kong, Faming Liang, Jun S. Liu, Wing Hung Wong, Dongmin Xu
1999 J jnl
Bayesian inference on biopolymer models.
Bioinform.
Jun S. Liu, Charles E. Lawrence
1999 — conf
Relaxed Simulated Tempering for VLSI Floorplan Designs.
ASP-DAC
Jason Cong, Tianming Kong, Dongmin Xu, Faming Liang, Jun S. Liu, Wing Hung Wong
1998 J jnl
Bayesian adaptive sequence alignment algorithms.
Bioinform.
Jun Zhu, Jun S. Liu, Charles E. Lawrence
1997 A conf
Bayesian Adaptive Alignment and Inference.
ISMB
Jun Zhu, Jun S. Liu, Charles E. Lawrence
1996 J jnl
Metropolized independent sampling with comparisons to rejection sampling and importance sampling.
Stat. Comput.
Jun S. Liu
1994 — conf
A Gibbs Sampler for the Detection of Subtle Motifs in Multiple Sequences.
HICSS (5)
Charles E. Lawrence, Stephen F. Altschul, John C. Wootton, Mark S. Boguski, Andrew F. Neuwald, Jun S. Liu