Jing He
Orcid: 0000-0002-7249-4746Affiliations:
- Old Dominion University, Department of Computer Science, Norfolk, VA, USA
- New Mexico State University, Computer Science Department, Las Cruces, NM, USA (former)
According to our database1,
Jing He
authored at least 53 papers
between 2004 and 2023.
Collaborative distances:
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Bibliography
2023
An Approach to Developing Benchmark Datasets for Protein Secondary Structure Segmentation from Cryo-EM Density Maps.
Proceedings of the 14th ACM International Conference on Bioinformatics, 2023
Proceedings of the 14th ACM International Conference on Bioinformatics, 2023
2022
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022
The Combined Focal Cross Entropy and Dice Loss Function for Segmentation of Protein Secondary Structures from Cryo-EM 3D Density maps.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022
Refinement of AlphaFold2 Models against Experimental Cryo-EM Density Maps at 4-6Å Resolution.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2022
2021
A Tool for Segmentation of Secondary Structures in 3D Cryo-EM Density Map Components Using Deep Convolutional Neural Networks.
Frontiers Bioinform., 2021
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021
Tracing Filaments in Simulated 3D Cryo-Electron Tomography Maps Using a Fast Dynamic Programming Algorithm.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021
2020
Cylindrical Similarity Measurement for Helices in Medium-Resolution Cryo-Electron Microscopy Density Maps.
J. Chem. Inf. Model., 2020
Correction of Missing-Wedge Artifacts in Filamentous Tomograms by Template-Based Constrained Deconvolution.
J. Chem. Inf. Model., 2020
2019
A Histogram-based Outlier Profile for Atomic Structures Derived from Cryo-Electron Microscopy.
Proceedings of the 10th ACM International Conference on Bioinformatics, 2019
2018
<i>Special Issue</i>Preface: The 9th Computational Structural Bioinformatics Workshop.
J. Comput. Biol., 2018
A Pattern Recognition Tool for Medium-Resolution Cryo-EM Density Maps and Low-Resolution Cryo-ET Density Maps.
Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018
Exploratory Studies Detecting Secondary Structures in Medium Resolution 3D Cryo-EM Images Using Deep Convolutional Neural Networks.
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
Using Combined Features to Analyze Atomic Structures derived from Cryo-EM Density Maps.
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018
2017
An Effective Computational Method Incorporating Multiple Secondary Structure Predictions in Topology Determination for Cryo-EM Images.
IEEE ACM Trans. Comput. Biol. Bioinform., 2017
Comparing an Atomic Model or Structure to a Corresponding Cryo-electron Microscopy Image at the Central Axis of a Helix.
J. Comput. Biol., 2017
Preface: Selected Articles from 2015 Computational Structural Bioinformatics Workshop.
J. Comput. Biol., 2017
Proceedings of the 8th ACM International Conference on Bioinformatics, 2017
2016
Constrained cyclic coordinate descent for cryo-EM images at medium resolutions: beyond the protein loop closure problem.
Robotica, 2016
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016
Deep convolutional neural networks for detecting secondary structures in protein density maps from cryo-electron microscopy.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2016
2015
A Dynamic Programming Algorithm for Finding the Optimal Placement of a Secondary Structure Topology in Cryo-EM Data.
J. Comput. Biol., 2015
A Novel Computational Method for Deriving Protein Secondary Structure Topologies Using Cryo-EM Density Maps and Multiple Secondary Structure Predictions.
Proceedings of the Bioinformatics Research and Applications - 11th International Symposium, 2015
Deriving Protein Backbone Using Traces Extracted from Density Maps at Medium Resolutions.
Proceedings of the Bioinformatics Research and Applications - 11th International Symposium, 2015
Detection of Secondary Structures from 3D Protein Images of Medium Resolutions and its Challenges.
Proceedings of the Image and Graphics - 8th International Conference, 2015
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015
2014
Solving the Secondary Structure MatchingProblem in Cryo-EM De Novo ModelingUsing a Constrained $K$-Shortest Path Graph Algorithm.
IEEE ACM Trans. Comput. Biol. Bioinform., 2014
Combining image processing and modeling to generate traces of beta-strands from cryo-EM density images of beta-barrels.
Proceedings of the 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2014
Proceedings of the 5th ACM Conference on Bioinformatics, 2014
Construction of protein backbone pieces using segment-based FBCCD and Cryo-EM skeleton.
Proceedings of the 5th ACM Conference on Bioinformatics, 2014
2013
Intensity-Based Skeletonization of CryoEM Gray-Scale Images Using a True Segmentation-Free Algorithm.
IEEE ACM Trans. Comput. Biol. Bioinform., 2013
Proceedings of the ACM Conference on Bioinformatics, 2013
A Constrained K-shortest Path Algorithm to Rank the Topologies of the Protein Secondary Structure Elements Detected in CryoEM Volume Maps.
Proceedings of the ACM Conference on Bioinformatics, 2013
2012
Improved Efficiency in Cryo-EM Secondary Structure Topology Determination from Inaccurate Data.
J. Bioinform. Comput. Biol., 2012
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012
Building the initial chain of the proteins through de novo modeling of the cryo-electron microscopy volume data at the medium resolutions.
Proceedings of the ACM International Conference on Bioinformatics, 2012
2011
Ranking Valid Topologies of the Secondary Structure Elements Using a Constraint Graph.
J. Bioinform. Comput. Biol., 2011
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011
A Constraint Dynamic Graph Approach to Identify the Secondary Structure Topology from cryoEM Density Data in Presence of Errors.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2011
2010
Structure prediction for the helical skeletons detected from the low resolution protein density map.
BMC Bioinform., 2010
2009
An effective convergence independent loop closure method using Forward-Backward Cyclic Coordinate Descent.
Int. J. Data Min. Bioinform., 2009
Reduction of the secondary structure topological space through direct estimation of the contact energy formed by the secondary structures.
BMC Bioinform., 2009
2008
Deriving Topology and Sequence Alignment for the Helix Skeleton in Low-Resolution protein Density Maps.
J. Bioinform. Comput. Biol., 2008
2007
A Constraint Logic Programming approach to associate 1D and 3D structural components for large protein complexes.
Int. J. Data Min. Bioinform., 2007
Deriving Protein Structure Topology from the Helix Skeletion in Low Resolution Density Map using Rosetta.
Proceedings of 5th Asia-Pacific Bioinformatics Conference, 2007
2006
A constraint logic programming approach to 3D structure determination of large protein complexes.
Proceedings of the 2006 ACM Symposium on Applied Computing (SAC), 2006
2005
Using the Length Constraints of Helix to Evaluate protein secondary Structure Prediction for Helix.
Proceedings of the Advances in Bioinformatics and Its Applications, 2005
2004
A Parallel Algorithm for Helix Mapping Between 3D and 1D Protein Structure Using the Length Constraints.
Proceedings of the Parallel and Distributed Processing and Applications, 2004
Proceedings of the Second Asia-Pacific Bioinformatics Conference (APBC 2004), 2004