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Papers matching “topology” 1,544

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Generalized Circuit Topology of Folded Linear Chains
2020 iScience article Mathematics Geometric and Algebraic Topology Open access

Anatoly Golovnev, Alireza Mashaghi

24

citations
Circuit topology analysis of cellular genome reveals signature motifs, conformational heterogeneity, and scaling
2022 iScience article Biochemistry, Genetics and Molecular Biology Genomics and Chromatin Dynamics Open access

Barbara Scalvini, Helmut Schießel, Anatoly Golovnev, Alireza Mashaghi

9

citations
ProteinCT: An implementation of the protein circuit topology framework
2022 MethodsX article Biochemistry, Genetics and Molecular Biology Protein Structure and Dynamics Open access

Duane Moes, Seyedeh Elnaz Banijamali, Vahid Sheikhhassani, Barbara Scalvini, Jaie C. Woodard, Alireza Mashaghi

7

citations
Topology Optimization with Tetra-kai-decahedra and Spheroidal Masks
2022 arXiv (Cornell University) preprint Engineering Topology Optimization in Engineering Open access

Nikhil Kumar Singh, Anupam Saxena

0

citations
A topology framework for macromolecular complexes and condensates
2022 Nano Research article Biochemistry, Genetics and Molecular Biology Protein Structure and Dynamics Open access

Maziar Heidari, Duane Moes, Otto Schullian, Barbara Scalvini, Alireza Mashaghi

11

citations
Semantic Topology: a New Perspective for Communication Style Characterization
2025 conference-paper Social Sciences Misinformation and Its Impacts Open access

Barbara Scalvini, Alireza Mashaghi

0

citations
RNA topology: From simple loops to complex circuits — A review
2026 International Journal of Biological Macromolecules article Biochemistry, Genetics and Molecular Biology RNA and protein synthesis mechanisms Open access

Reza Rezazadegan, Eugene F. Baulin, Alireza Mashaghi

1

citations
RNA topology: from simple loops to complex circuits
2026 ChemRxiv preprint Biochemistry, Genetics and Molecular Biology RNA and protein synthesis mechanisms Open access

Reza Rezazadegan, Eugene F. Baulin, Alireza Mashaghi

0

citations
Circuit Topology for Bottom-Up Engineering of Molecular Knots
2021 Symmetry article Mathematics Geometric and Algebraic Topology Open access

Anatoly Golovnev, Alireza Mashaghi

7

citations
An Ising machine formulation for design updates in topology optimization of flow channels
2026 Engineering With Computers article Engineering Topology Optimization in Engineering Open access

Yudai Suzuki, Shiori Aoki, Fabian Key, K. Endo, Yoshiki Matsuda, Shu Tanaka, +2 more

4

citations
Decoding chirality in circuit topology of a self entangled chain through braiding
2023 Soft Matter article Mathematics Geometric and Algebraic Topology Open access

Jonas Berx, Alireza Mashaghi

3

citations
An Ising Machine Formulation for Design Updates in Topology Optimization of Flow Channels
2024 arXiv (Cornell University) preprint Engineering Topology Optimization in Engineering Open access

Yudai Suzuki, Fabian Key, Katsuhiro Endo, Yoshiki Matsuda, Shu Tanaka, Marek Behr, +1 more

0

citations
Circuit topology for bottom-up engineering of molecular knots
2021 arXiv (Cornell University) preprint Mathematics Geometric and Algebraic Topology Open access

Anatoly Golovnev, Alireza Mashaghi

0

citations
Polynomial Invariant of Molecular Circuit Topology
2021 Symmetry article Mathematics Geometric and Algebraic Topology Open access

Alireza Mashaghi, Roland van der Veen

2

citations
Integrated topology and shape optimization of a thin-walled automotive demonstrator under casting constraints
2026 Journal of Manufacturing Processes article Engineering Topology Optimization in Engineering Open access

Nima Roudbarian, Mohammadali Ebadi, Jayesh Singh, Lukas Kettenhofen, Mahan Firoozbakht, Andreas Bührig–Polaczek, +1 more

0

citations
A tile model of circuit topology for self-entangled biopolymers
2023 Scientific Reports article Mathematics Geometric and Algebraic Topology Open access

Erica Flapan, Alireza Mashaghi, Helen Wong

2

citations
Circuit topology predicts pathogenicity of missense mutations
2022 Proteins Structure Function and Bioinformatics article Biochemistry, Genetics and Molecular Biology Protein Structure and Dynamics Open access

Jaie C. Woodard, Sumaiya Iqbal, Alireza Mashaghi

10

citations
Observing 0D subwavelength-localized modes at ~100 THz protected by weak topology
2021 Science Advances article Physics and Astronomy Topological Materials and Phenomena Open access

Jinlong Lu, Konstantin G. Wirth, Wenlong Gao, Andreas Heßler, Basudeb Sain, Thomas Taubner, +1 more

15

citations
Cosmic topology. Part IIb. Eigenmodes, correlation matrices, and detectability of non-orientable Euclidean manifolds
2026 Journal of Cosmology and Astroparticle Physics article Physics and Astronomy Cosmology and Gravitation Theories Open access

Craig J. Copi, Amirhossein Samandar, Glenn D. Starkman, Javier Carrón Duque, Y. Akrami, S Anselmi, +10 more

1

citations
Normalized Field Product Approach: A Parameter‐Free Density Evaluation Method for Close‐To‐Binary Solutions in Topology Optimization With Embedded Length Scale
2025 International Journal for Numerical Methods in Engineering article Engineering Topology Optimization in Engineering Open access

Prabhat Kumar, Anupam Saxena

3

citations
Normalized field product approach: A parameter-free density evaluation method for close-to-binary solutions in topology optimization with embedded length scale
2024 arXiv (Cornell University) preprint Engineering Topology Optimization in Engineering Open access

Nikhil Pratap Singh, Prabhat Kumar, Anupam Saxena

0

citations
Stabilization of topology optimization problems using Voronoi tessellations
2024 PAMM article Engineering Topology Optimization in Engineering Open access

Georgia Kikis, Bjorn Sauren, Carolin Birk, Sven Klinkel

0

citations
Constraining stochastic 3-D structural geological models with topology information using approximate Bayesian computation in GemPy 2.1
2021 Geoscientific model development article Earth and Planetary Sciences Geological Modeling and Analysis Open access

Alexander Schaaf, Miguel de la Varga, Florian Wellmann, Clare Elizabeth Bond

26

citations
A Circuit Topology Approach to Categorizing Changes in Biomolecular Structure
2020 Frontiers in Physics article Biochemistry, Genetics and Molecular Biology RNA and protein synthesis mechanisms Open access

Otto Schullian, Jaie C. Woodard, Arash Tirandaz, Alireza Mashaghi

20

citations
Capturing natural fracture topology in DFNs for energy and storage applications
2026 conference-abstract Earth and Planetary Sciences Geological Modeling and Analysis Open access

Sarah Alisa Weihmann, James R. Mullins, Frank Charlier, Klaus Fischer-Appelt

0

citations