Jie Liang - RankMe

48 papers C 1Misc 1Journal 27Unranked 19

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	Structural basis of differential gene expression at eQTLs loci from high-resolution ensemble models of 3D single-cell chromatin conformations. Bioinform. Lin Du, Hammad Farooq, Pourya Delafrouz, Jie Liang
2024	J	`jnl`	ALPHAGMUT: A Rationale-Guided Alpha Shape Graph Neural Network to Evaluate Mutation Effects. CoRR Boshen Wang, Bowei Ye, Lin Xu, Jie Liang
2024	—	`conf`	Predicting Functional Surface Topographies Combining Topological Data Analysis and Deep Learning Across the Human Protein Universe. EMBC Bowei Ye, Jie Liang
2023	—	`conf`	Predicting Pathology of Missense Mutations through Protein-Specific Evolutionary Pattern. EMBC Bowei Ye, Boshen Wang, Jie Liang
2023	J	`jnl`	Structure-based pathogenicity relationship identifier for predicting effects of single missense variants and discovery of higher-order cancer susceptibility clusters of mutations. Briefings Bioinform. Boshen Wang, Xue Lei, Wei Tian, Alan Perez-Rathke, Yan-Yuan Tseng, Jie Liang
2022	J	`jnl`	Modeling and simulation of cell nuclear architecture reorganization process. J. Comput. Phys. Qing Cheng, Pourya Delafrouz, Jie Liang, Chun Liu, Jie Shen
2021	—	`conf`	Inferring initial state of the ancestral network of cellular fate decision: a case study of phage lambda. EMBC Yiyu Pang, Jie Liang
2021	J	`jnl`	Modeling and simulation of nuclear architecture reorganization process using a phase field approach. CoRR Qing Cheng, Pourya Delafrouz, Jie Liang, Chun Liu, Jie Shen
2019	—	`conf`	Alterations in Chromatin Folding Patterns in Cancer Variant-Enriched Loci. BHI Alan Perez-Rathke, Samira Mali, Lin Du, Jie Liang
2019	J	`jnl`	Evolution of coagulation-fragmentation stochastic processes using accurate chemical master equation approach. Commun. Inf. Syst. Farid Manuchehrfar, Wei Tian, Tom Chou, Jie Liang
2019	J	`jnl`	Guest Editorial on the Special Issue on Integrating Informatics and Technology for Precision Medicine. IEEE J. Biomed. Health Informatics Constantinos S. Pattichis, Constantinos Pitris, Jie Liang, Yuan-Ting Zhang
2019	—	`conf`	Predicting Oncogenic Missense Mutations. BHI Xue Lei, Boshen Wang, Alan Perez-Rathke, Wei Tian, Chia-Yi Chou, Yan-Yuan Tseng, Jie Liang
2019	—	`conf`	Sensitivities of Regulation Intensities in Feed-Forward Loops with Multistability. EMBC Anna Terebus, Youfang Cao, Jie Liang
2019	—	`conf`	Structure-based Method for Predicting Deleterious Missense SNPs. BHI Boshen Wang, Wei Tian, Xue Lei, Alan Perez-Rathke, Yan Yuan Tseng, Jie Liang
2018	—	`conf`	A general method for predicting amino acid residues experiencing hydrogen exchange. BHI Boshen Wang, Alan Perez-Rathke, Renhao Li, Jie Liang
2018	J	`jnl`	CASTp 3.0: computed atlas of surface topography of proteins. Nucleic Acids Res. Wei Tian, Chang Chen, Xue Lei, Jieling Zhao, Jie Liang
2018	J	`jnl`	Guest Editorial IEEE BHI 2017. IEEE J. Biomed. Health Informatics Jie Liang, Michalis E. Zervakis, Julien Penders
2018	—	`conf`	On quantification of geometry and topology of protein pockets and channels for assessing mutation effects. BHI Wei Tian, Jie Liang
2017	J	`jnl`	Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins. Bioinform. Wei Tian, Meishan Lin, Hammad Naveed, Jie Liang
2017	J	`jnl`	Guest Editorial IEEE BHI 2016. IEEE J. Biomed. Health Informatics Stephen Redmond, Jie Liang, Constantinos S. Pattichis
2017	J	`jnl`	PRODIGEN: visualizing the probability landscape of stochastic gene regulatory networks in state and time space. BMC Bioinform. Chihua Ma, Timothy Luciani, Anna Terebus, Jie Liang, G. Elisabeta Marai
2017	J	`jnl`	Spatial organization of the budding yeast genome in the cell nucleus and identification of specific chromatin interactions from multi-chromosome constrained chromatin model. PLoS Comput. Biol. Gamze Gürsoy, Yun Xu, Jie Liang
2016	J	`jnl`	Accurate Chemical Master Equation Solution Using Multi-Finite Buffers. Multiscale Model. Simul. Youfang Cao, Anna Terebus, Jie Liang
2016	—	`conf`	Mechanisms of stochastic focusing and defocusing in biological reaction networks: Insight from accurate Chemical Master Equation (ACME) solutions. EMBC Gamze Giirsoy, Anna Terebus, Youfang Cao, Jie Liang
2015	J	`jnl`	Guest Editorial EMBC 2014. IEEE J. Biomed. Health Informatics Walter G. Besio, Leslie Ying, Jie Liang, Nigel H. Lovell, Carmen C. Y. Poon, May D. Wang
2014	—	`conf`	Computational predictions of structures of multichromosomes of budding yeast. EMBC Gamze Gürsoy, Yun Xu, Jie Liang
2014	—	`conf`	Effects of mechanical properties on tumor invasion: Insights from a cellular model. EMBC Yingzi Li, Hammad Naveed, Jie Liang, Lisa X. Xu
2014	—	`conf`	Exact computation of probability landscape of stochastic networks of Single Input and Coupled Toggle Switch Modules. EMBC Anna Terebus, Youfang Cao, Jie Liang
2014	J	`jnl`	Fast Protein Loop Sampling and Structure Prediction Using Distance-Guided Sequential Chain-Growth Monte Carlo Method. PLoS Comput. Biol. Ke Tang, Jinfeng Zhang, Jie Liang
2014	—	`conf`	Roles of regulated internalization in the polarization of cell surface receptors. EMBC Wei Tian, Youfang Cao, Amber Ismael, David Stone, Jie Liang
2013	—	`conf`	Dynamic mechanical finite element model of biological cells for studying cellular pattern formation. EMBC Jieling Zhao, Hammad Naveed, Sema Kachalo, Youfang Cao, Wei Tian, Jie Liang
2013	—	`conf`	GPU-Based Steady-State Solution of the Chemical Master Equation. IPDPS Workshops Marco Maggioni, Tanya Y. Berger-Wolf, Jie Liang
2013	J	`jnl`	Grand Challenges in Interfacing Engineering With Life Sciences and Medicine. IEEE Trans. Biomed. Eng. Bin He, Richard Baird, Robert J. Butera, Aniruddha Datta, Steven George, Bruce Hecht, Alfred O. Hero III, Gianluca Lazzi, Raphael C. Lee, Jie Liang, Michael R. Neuman, Grace C. Y. Peng, Eric J. Perreault, Melur Ramasubramanian, May D. Wang, John P. Wikswo, Guang-Zhong Yang, Yuan-Ting Zhang
2013	—	`conf`	Modeling spatial population dynamics of stem cell lineage in wound healing and cancerogenesis. EMBC Youfang Cao, Hammad Naveed, Claire Liang, Jie Liang
2011	Misc	`conf`	GPU-accelerated Chemical Similarity Assessment for Large Scale Databases. ICCS Marco Maggioni, Marco D. Santambrogio, Jie Liang
2011	—	`conf`	Mechanical forces mediate localized topological change in epithelia. EMBC Yingzi Li, Hammad Naveed, Sema Kachalo, Lisa X. Xu, Jie Liang
2009	J	`jnl`	Computational Cellular Dynamics Based on the Chemical Master Equation: A Challenge for Understanding Complexity. J. Comput. Sci. Technol. Jie Liang, Hong Qian
2008	J	`jnl`	Novel Approach to Structure-Based Pharmacophore Search Using Computational Geometry and Shape Matching Techniques. J. Chem. Inf. Model. Jerry Osagie Ebalunode, Zheng Ouyang, Jie Liang, Weifan Zheng
2008	J	`jnl`	Optimal enumeration of state space of finitely buffered stochastic molecular networks and exact computation of steady state landscape probability. BMC Syst. Biol. Youfang Cao, Jie Liang
2007	J	`jnl`	Foreword. Algorithmica Piotr Berman, Bhaskar DasGupta, Jie Liang
2007	C	`conf`	Topology Independent Protein Structural Alignment. WABI Joe Dundas, T. Andrew Binkowski, Bhaskar DasGupta, Jie Liang
2007	J	`jnl`	Topology independent protein structural alignment. BMC Bioinform. Joe Dundas, T. Andrew Binkowski, Bhaskar DasGupta, Jie Liang
2006	—	`conf`	Automated method for predicting enzyme functional surfaces and locating key residues with accuracy and specificity. EMBC Yan Yuan Tseng, Jie Liang
2006	J	`jnl`	CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues. Nucleic Acids Res. Joe Dundas, Zheng Ouyang, Jeffery Tseng, T. Andrew Binkowski, Yaron Turpaz, Jie Liang
2004	J	`jnl`	Developing optimal non-linear scoring function for protein design. Bioinform. Changyu Hu II, Xiang Li, Jie Liang
2004	J	`jnl`	pvSOAR: detecting similar surface patterns of pocket and void surfaces of amino acid residues on proteins. Nucleic Acids Res. T. Andrew Binkowski, Patrick Freeman, Jie Liang
2004	J	`jnl`	topoSNP: a topographic database of non-synonymous single nucleotide polymorphisms with and without known disease association. Nucleic Acids Res. Nathan O. Stitziel, T. Andrew Binkowski, Yan Yuan Tseng, Simon Kasif, Jie Liang
2003	J	`jnl`	CASTp: Computed Atlas of Surface Topography of proteins. Nucleic Acids Res. T. Andrew Binkowski, Shapor Naghibzadeh, Jie Liang