Persistent topology for cryo‐EM data analysis
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- Type
- article
- Published
- 2014-12-07
- Cited by
- 44
- References
- 112
- Access
- Open access
- OpenAlex
- https://openalex.org/W1960392612
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:9145890
Keywords
Persistent homology, Topological data analysis, Topology (electrical circuits), Noise (video), Noise reduction
References
- On the origin and highly likely completeness of single-domain protein structures.
- Deriving Topology and Sequence Alignment for the Helix Skeleton in Low-Resolution protein Density Maps
- Electron cryotomography.
- 書評 Computational Homology
- Methods for segmentation and interpretation of electron tomographic reconstructions.
- Blind Swarms for Coverage in 2-D
- Topological estimation using witness complexes
- Protein Structure Prediction Using Rosetta
- The minimal molecular surface
- Topological De-Noising: Strengthening the Topological Signal
- Molecular multiresolution surfaces
- Curvelet processing of MRI for local image enhancement
- Implementation of solvent effect in molecular mechanics Part 3. The first- and second-order analytical derivatives of excluded volume
- Persistent Brain Network Homology From the Perspective of Dendrogram
- Multiscale Multiphysics and Multidomain Models I: Basic Theory
- Improved Efficiency in Cryo-EM Secondary Structure Topology Determination from Inaccurate Data
- Native secondary structure topology has near minimum contact energy among all possible geometrically constrained topologies
- Efficient automatic noise reduction of electron tomographic reconstructions based on iterative median filtering.
- Computing Reeb Graphs as a Union of Contour Trees
- On the segmentation of vascular geometries from medical images
Cited by
- Using persistent homology and dynamical distances to analyze protein binding
- Multiscale Gaussian network model (mGNM) and multiscale anisotropic network model (mANM).
- Multiresolution Topological Simplification
- Multiresolution persistent homology for excessively large biomolecular datasets.
- Object-oriented Persistent Homology
- Multidimensional persistence in biomolecular data
- Flexibility-Rigidity Index for Protein-Nucleic Acid Flexibility and Fluctuation Analysis
- Topological persistence vineyard for dynamic functional brain connectivity during resting and gaming stages.
- A topological approach for protein classification
- Multiscale Persistent Functions for Biomolecular Structure Characterization
- A review of geometric, topological and graph theory apparatuses for the modeling and analysis of biomolecular data
- Analysis and prediction of protein folding energy changes upon mutation by element specific persistent homology
- Integration of element specific persistent homology and machine learning for protein‐ligand binding affinity prediction
- A quantitative structure comparison with persistent similarity
- TopologyNet: Topology based deep convolutional and multi-task neural networks for biomolecular property predictions
- Quantitative Toxicity Prediction Using Topology Based Multitask Deep Neural Networks
- Topological Fidelity and Image Thresholding: A Persistent Homology Approach
- Mathematical deep learning for pose and binding affinity prediction and ranking in D3R Grand Challenges
- Generalized persistence analysis based on stable rank invariant
- Persistent-Homology-Based Machine Learning and Its Applications -- A Survey
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