A topological approach for protein classification
From MaRDI portal
Publication:326629
DOI10.1515/mlbmb-2015-0009zbMath1347.92054arXiv1510.00953OpenAlexW2481594651WikidataQ62727751 ScholiaQ62727751MaRDI QIDQ326629
Zixuan Cang, Kristopher Opron, Kedi Wu, Guo-Wei Wei, Lin Mu, Ke-Lin Xia
Publication date: 12 October 2016
Published in: Molecular Based Mathematical Biology (Search for Journal in Brave)
Full work available at URL: https://arxiv.org/abs/1510.00953
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Uses Software
Cites Work
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- Morse theory for filtrations and efficient computation of persistent homology
- A fast algorithm for constructing topological structure in large data
- Persistent cohomology and circular coordinates
- Persistent intersection homology
- Topological and statistical methods for complex data. Tackling large-scale, high-dimensional, and multivariate data spaces. Selected papers based on the presentations at the workshop on the analysis of large-scale, high-dimensional, and multivariate data using topology and statistics, Le Barp, France, June 12--14, 2013
- Differential geometry based solvation model. I: Eulerian formulation
- A Mayer-Vietoris formula for persistent homology with an application to shape recognition in the presence of occlusions
- Differential geometry based solvation model II: Lagrangian formulation
- Differential geometry based multiscale models
- Geometric and potential driving formation and evolution of biomolecular surfaces
- Extreme elevation on a 2-manifold
- Stability of persistence diagrams
- On the local behavior of spaces of natural images
- The theory of multidimensional persistence
- Extending persistence using Poincaré and Lefschetz duality
- Computational homology
- Computing persistent homology
- Topological persistence and simplification
- Support-vector networks
- Zigzag persistence
- A topological measurement of protein compressibility
- Sliding windows and persistence: an application of topological methods to signal analysis
- Topological methods in data analysis and visualization III. Theory, algorithms, and applications. Based on the 5th workshop on topology-based methods in data analysis and visualization, TopoInVis 2013, Davis, CA, USA, March 4--6, 2013
- javaPlex: A Research Software Package for Persistent (Co)Homology
- Biomolecular surface construction by PDE transform
- Quantum dynamics in continuum for proton transport II: Variational solvent-solute interface
- A Topological View of Unsupervised Learning from Noisy Data
- Persistent homology of complex networks
- Clear and Compress: Computing Persistent Homology in Chunks
- A distance for similarity classes of submanifolds of a Euclidean space
- Topology and data
- Computing Multidimensional Persistence
- Computing Topological Persistence for Simplicial Maps
- Variational Multiscale Models for Charge Transport
- Zigzag zoology
- Proximity of persistence modules and their diagrams
- Zigzag persistent homology and real-valued functions
- Persistence-based clustering in riemannian manifolds
- PERSISTENCE BARCODES FOR SHAPES
- A Fast Learning Algorithm for Deep Belief Nets
- Barcodes: The persistent topology of data
- A logical calculus of the ideas immanent in nervous activity