Christian M. Reidys

CoRR, 2024

2022

Michael Waterman's Contributions to Computational Biology and Bioinformatics.

[BibT_eX]

[DOI]

J. Comput. Biol., 2022

A computational framework for weighted simplicial homology.

[BibT_eX]

[DOI]

CoRR, 2022

2021

Multiscale Feedback Loops in SARS-CoV-2 Viral Evolution.

[BibT_eX]

[DOI]

J. Comput. Biol., 2021

Loop homology of bi-secondary structures.

[BibT_eX]

[DOI]

Qijun He

Discret. Math., 2021

The energy-spectrum of bicompatible sequences.

[BibT_eX]

[DOI]

Algorithms Mol. Biol., 2021

2020

On an enhancement of RNA probing data using information theory.

[BibT_eX]

[DOI]

Thomas J. X. Li

Algorithms Mol. Biol., 2020

2019

D-Chain Tomography of Networks: A New Structure Spectrum and an Application to the SIR Process.

[BibT_eX]

[DOI]

SIAM J. Appl. Dyn. Syst., 2019

A Boltzmann Sampler for 1-Pairs with Double Filtration.

[BibT_eX]

[DOI]

Qijun He

J. Comput. Biol., 2019

2018

An Efficient Dual Sampling Algorithm with Hamming Distance Filtration.

[BibT_eX]

[DOI]

Qijun He

J. Comput. Biol., 2018

Network tomography: a new structure spectrum for studying network dynamics.

[BibT_eX]

[DOI]

CoRR, 2018

Degeneracy and genetic assimilation in RNA evolution.

[BibT_eX]

[DOI]

Reza Rezazadegan

BMC Bioinform., 2018

2017

A Combinatorial Identity Concerning Plane Colored Trees and its Applications.

[BibT_eX]

[DOI]

J. Integer Seq., 2017

A topological framework for signed permutations.

[BibT_eX]

[DOI]

Discret. Math., 2017

Sequence-structure relations of biopolymers.

[BibT_eX]

[DOI]

Bioinform., 2017

2016

Plane Permutations and Applications to a Result of Zagier-Stanley and Distances of Permutations.

[BibT_eX]

[DOI]

SIAM J. Discret. Math., 2016

RNA Secondary Structures Having a Compatible Sequence of Certain Nucleotide Ratios.

[BibT_eX]

[DOI]

Thomas J. X. Li

J. Comput. Biol., 2016

Topological language for RNA.

[BibT_eX]

[DOI]

CoRR, 2016

2015

A simple framework on sorting permutations.

[BibT_eX]

[DOI]

CoRR, 2015

Evidence of higher order patterns in information transmission between nucleotide sequences and folded molecular shapes of RNA.

[BibT_eX]

[DOI]

Proceedings of the BICT 2015, 2015

2014

Combinatorics of γ-Structures.

[BibT_eX]

[DOI]

Thomas J. X. Li

J. Comput. Biol., 2014

Shapes of Interacting RNA Complexes.

[BibT_eX]

[DOI]

Benjamin M. M. Fu

J. Comput. Biol., 2014

The evolution of the random reversal graph.

[BibT_eX]

[DOI]

Appl. Math. Comput., 2014

2013

On Topological RNA Interaction Structures.

[BibT_eX]

[DOI]

Jing Qin

J. Comput. Biol., 2013

Uniform generation of RNA pseudoknot structures with genus filtration

[BibT_eX]

[DOI]

Markus E. Nebel

CoRR, 2013

2012

A Phase Transition in Energy-Filtered RNA Secondary Structures.

[BibT_eX]

[DOI]

J. Comput. Biol., 2012

The 5′-3′ Distance of RNA Secondary Structures.

[BibT_eX]

[DOI]

J. Comput. Biol., 2012

Topology of RNA-RNA Interaction Structures.

[BibT_eX]

[DOI]

J. Comput. Biol., 2012

Symmetric circular matchings and RNA folding.

[BibT_eX]

[DOI]

Ivo L. Hofacker

Discret. Math., 2012

Addendum: topology and prediction of RNA pseudoknots.

[BibT_eX]

[DOI]

Bioinform., 2012

On the combinatorics of sparsification.

[BibT_eX]

[DOI]

Algorithms Mol. Biol., 2012

2011

Loops in Canonical RNA Pseudoknot Structures.

[BibT_eX]

[DOI]

Markus E. Nebel

Rita R. Wang

J. Comput. Biol., 2011

Random induced subgraphs of Cayley graphs induced by transpositions.

[BibT_eX]

[DOI]

Discret. Math., 2011

Topology and prediction of RNA pseudoknots.

[BibT_eX]

[DOI]

Bioinform., 2011

RNA-RNA interaction prediction based on multiple sequence alignments.

[BibT_eX]

[DOI]

Bioinform., 2011

Combinatorial Computational Biology of RNA - Pseudoknots and Neutral Networks.

[BibT_eX]

[DOI]

Springer, ISBN: 978-0-387-76730-7, 2011

2010

Shapes of RNA Pseudoknot Structures.

[BibT_eX]

[DOI]

Rita R. Wang

J. Comput. Biol., 2010

RNA pseudoknot structures with arc-length >=3 and stack-length >=sigma.

[BibT_eX]

[DOI]

Discret. Appl. Math., 2010

Modular, k-Noncrossing Diagrams.

[BibT_eX]

[DOI]

Rita R. Wang

Albus Y. Y. Zhao

Electron. J. Comb., 2010

On the Uniform Generation of Modular Diagrams.

[BibT_eX]

[DOI]

Electron. J. Comb., 2010

Target prediction and a statistical sampling algorithm for RNA-RNA interaction.

[BibT_eX]

[DOI]

Bioinform., 2010

Inverse folding of RNA pseudoknot structures.

[BibT_eX]

[DOI]

James Z. M. Gao

Linda Y. M. Li

Algorithms Mol. Biol., 2010

On the decomposition of k-noncrossing RNA structures.

[BibT_eX]

[DOI]

Adv. Appl. Math., 2010

2009

Folding 3-Noncrossing RNA Pseudoknot Structures.

[BibT_eX]

[DOI]

Wade W. J. Peng

J. Comput. Biol., 2009

Large components in random induced subgraphs of n-cubes.

[BibT_eX]

[DOI]

Discret. Math., 2009

Efficient Counting and Asymptotics of k-Noncrossing Tangled Diagrams.

[BibT_eX]

[DOI]

Electron. J. Comb., 2009

Sequence-structure relations of pseudoknot RNA.

[BibT_eX]

[DOI]

Linda Y. M. Li

BMC Bioinform., 2009

Partition function and base pairing probabilities for RNA-RNA interaction prediction.

[BibT_eX]

[DOI]

Bioinform., 2009

Combinatorial design of pseudoknot RNA.

[BibT_eX]

[DOI]

Adv. Appl. Math., 2009

2008

Canonical RNA Pseudoknot Structures.

[BibT_eX]

[DOI]

Gang Ma

J. Comput. Biol., 2008

Pseudoknot RNA Structures with Arc-Length >= 4.

[BibT_eX]

[DOI]

J. Comput. Biol., 2008

Combinatorics of sequential dynamical systems.

[BibT_eX]

[DOI]

Discret. Math., 2008

Crossings and Nestings in Tangled Diagrams.

[BibT_eX]

[DOI]

William Y. C. Chen

Jing Qin

Electron. J. Comb., 2008

An Introduction to Sequential Dynamical Systems.

[BibT_eX]

[DOI]

Universitext, Springer, ISBN: 978-0-387-30654-4, 2008

2007

On a New Class of Load Balancing Network Protocols.

[BibT_eX]

[DOI]

Adv. Complex Syst., 2007

2006

Combinatorics of Genotype-Phenotype Maps: An RNA Case Study.

[BibT_eX]

Proceedings of the Computational Complexity and Statistical Physics., 2006

2005

On certain morphisms of sequential dynamical systems.

[BibT_eX]

[DOI]

Discret. Math., 2005

On Asynchronous Cellular Automata.

[BibT_eX]

[DOI]

Anders Å. Hansson

Adv. Complex Syst., 2005

2004

Neutral Evolution and Mutation Rates of Sequential Dynamical Systems.

[BibT_eX]

[DOI]

Adv. Complex Syst., 2004

Reduction of Discrete Dynamical Systems over Graphs.

[BibT_eX]

[DOI]

Adv. Complex Syst., 2004

2003

ETS IV: Sequential dynamical systems: fixed points, invertibility and equivalence.

[BibT_eX]

[DOI]

Appl. Math. Comput., 2003

2002

Combinatorial Landscapes.

[BibT_eX]

[DOI]

SIAM Rev., 2002

Distances In Random Induced Subgraphs Of Generalized N-Cubes.

[BibT_eX]

[DOI]

Comb. Probab. Comput., 2002

Sequential dynamical systems.

[BibT_eX]

[DOI]

Artif. Life Robotics, 2002

2001

Discrete, sequential dynamical systems.

[BibT_eX]

[DOI]

Discret. Math., 2001

Neutrality in fitness landscapes.

[BibT_eX]

[DOI]

Appl. Math. Comput., 2001

Elements of a theory of simulation III: equivalence of SDS.

[BibT_eX]

[DOI]

Appl. Math. Comput., 2001

On Acyclic Orientations and Sequential Dynamical Systems.

[BibT_eX]

[DOI]

Adv. Appl. Math., 2001

2000

Random Subgraphs of Cayley Graphs over p-Groups.

[BibT_eX]

[DOI]

Eur. J. Comb., 2000

Elements of a theory of simulation II: sequential dynamical systems.

[BibT_eX]

[DOI]

Appl. Math. Comput., 2000

Sequential Dynamical Systems and Applications to Simulations.

[BibT_eX]

[DOI]

Proceedings of the Proceedings 33th Annual Simulation Symposium (SS 2000), 2000

1999

Elements of a theory of computer simulation I: Sequential CA over random graphs.

[BibT_eX]

[DOI]

Appl. Math. Comput., 1999

Neutral networks: a combinatorial perspective.

[BibT_eX]

[DOI]

Stephan Kopp

Adv. Complex Syst., 1999

1996

Bio-molecular Shapes and Algebraic Structures.

[BibT_eX]

[DOI]

Comput. Chem., 1996

Neutral Evolutionary Dynamics.

[BibT_eX]

Christian V. Forst

Proceedings of the German Conference on Bioinformatics, 1996

1995

Evolutionary Dynamics and Optimization: Neutral Networks as Model-Landscapes for RNA Secondary-Structure Folding-Landscapes.

[BibT_eX]

[DOI]

Christian V. Forst