| Publication | Date of Publication | Type |
|---|
| On the cut-vertex and the interval transit functions of hypergraphs | 2025-01-10 | Paper |
| Core potentials: the consensus segmentation conjecture | 2024-12-17 | Paper |
| Sorting signed permutations by tandem duplication random loss and inverse tandem duplication random loss | 2024-10-09 | Paper |
| Transit functions and pyramid-like binary clustering systems | 2024-09-26 | Paper |
| Fitch graph completion | 2024-08-22 | Paper |
| Chemically inspired Erdős-Rényi hypergraphs | 2024-07-25 | Paper |
| Forman-Ricci curvature for hypergraphs | 2024-05-06 | Paper |
| Every atom-atom map can be explained by electron pushing diagrams | 2023-11-22 | Paper |
| Optimisation via encodings: a renormalisation group perspective | 2023-11-13 | Paper |
| Orientation of Fitch Graphs and Reconciliation-Free Inference of Horizontal Gene Transfer in Gene Trees | 2023-10-13 | Paper |
| Unique Least Common Ancestors and Clusters in Directed Acyclic Graphs | 2023-09-24 | Paper |
| Injective split systems | 2023-07-12 | Paper |
| Comparison of Atom Maps | 2023-07-10 | Paper |
| Tailored machine learning models for functional RNA detection in genome-wide screens | 2023-07-06 | Dataset |
| Fitch Graph Completion | 2023-06-12 | Paper |
| The Theory of Gene Family Histories | 2023-04-24 | Paper |
| Planar median graphs and cubesquare-graphs | 2023-03-29 | Paper |
| Quasi-best match graphs | 2023-03-29 | Paper |
| Efficient eigenvalue counts for tree-like networks | 2023-03-10 | Paper |
| Hamiltonicity in power graphs of a class of abelian groups | 2023-03-02 | Paper |
| Economic genome assembly from low coverage illumina and nanopore data | 2023-02-07 | Paper |
| Hierarchical and modularly-minimal vertex colorings | 2022-12-19 | Paper |
| Transit Functions and Pyramid-Like Binary Clustering Systems | 2022-12-16 | Paper |
| Relative Timing Information and Orthology in Evolutionary Scenarios | 2022-12-05 | Paper |
| Whitney's connectivity inequalities for directed hypergraphs | 2022-11-04 | Paper |
| Generalized Fitch Graphs III: Symmetrized Fitch maps and Sets of Symmetric Binary Relations that are explained by Unrooted Edge-labeled Trees | 2022-09-30 | Paper |
| Least resolved trees for two-colored best match graphs | 2022-06-28 | Paper |
| Complete edge-colored permutation graphs | 2022-06-13 | Paper |
| Clustering Systems of Phylogenetic Networks | 2022-04-28 | Paper |
| Compatibility of partitions with trees, hierarchies, and split systems | 2022-04-20 | Paper |
| Cut vertex transit functions of hypergraphs | 2022-03-24 | Paper |
| From modular decomposition trees to rooted median graphs | 2022-02-09 | Paper |
| Compositional properties of alignments | 2022-01-28 | Paper |
| What makes a reaction network "chemical"? | 2022-01-05 | Paper |
| Best match graphs with binary trees | 2021-12-21 | Paper |
| Planar Median Graphs and Cubesquare-Graphs | 2021-10-18 | Paper |
| Transit sets of -point crossover operators | 2021-10-05 | Paper |
| Quasi-Best Match Graphs | 2021-09-21 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4956543 | 2021-09-02 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4956542 | 2021-09-02 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4956545 | 2021-09-02 | Paper |
| Indirect identification of horizontal gene transfer | 2021-07-13 | Paper |
| Combining Orthology and Xenology Data in a Common Phylogenetic Tree | 2021-07-05 | Paper |
| A Simple Linear-Time Algorithm for the Common Refinement of Rooted Phylogenetic Trees on a Common Leaf Set | 2021-06-30 | Paper |
| Corrigendum to: ``Best match graphs | 2021-04-27 | Paper |
| Complexity of modification problems for best match graphs | 2021-04-08 | Paper |
| Complete characterization of incorrect orthology assignments in best match graphs | 2021-03-25 | Paper |
| Arc-Completion of 2-Colored Best Match Graphs to Binary-Explainable Best Match Graphs | 2021-03-11 | Paper |
| Heuristic Algorithms for Best Match Graph Editing | 2021-03-10 | Paper |
| Transit sets of two-point crossover | 2021-02-19 | Paper |
| A stochastic model for the evolution of transcription factor binding site abundance | 2021-01-21 | Paper |
| Alignments of mitochondrial genome arrangements: applications to metazoan phylogeny | 2020-09-17 | Paper |
| Cograph editing: Merging modules is equivalent to editing P_4s | 2020-09-15 | Paper |
| Exact-2-relation graphs | 2020-08-31 | Paper |
| Accelerated evolution of tissue-specific genes mediates divergence amidst gene flow in European green lizards | 2020-08-15 | Dataset |
| Generalized Fitch graphs. II: Sets of binary relations that are explained by edge-labeled trees | 2020-06-29 | Paper |
| Forbidden time travel: Characterization of time-consistent tree reconciliation maps | 2020-05-27 | Paper |
| Centers of complex networks | 2020-05-06 | Paper |
| Quasi-independence, homology and the unity of type: a topological theory of characters | 2020-05-06 | Paper |
| Convexity deficit of benzenoids | 2020-03-21 | Paper |
| Best match graphs and reconciliation of gene trees with species trees | 2020-03-05 | Paper |
| Reciprocal best match graphs | 2020-02-21 | Paper |
| Complexity of modification problems for reciprocal best match graphs | 2020-01-29 | Paper |
| The short ruler on the torus | 2019-12-17 | Paper |
| Axiomatic characterization of transit functions of weak hierarchies | 2019-10-02 | Paper |
| A short note on undirected Fitch graphs | 2019-10-02 | Paper |
| Direct superbubble detection | 2019-07-08 | Paper |
| Hierarchical Colorings of Cographs | 2019-06-24 | Paper |
| Best match graphs | 2019-06-06 | Paper |
| Chromatin computation: epigenetic inheritance as a pattern reconstruction problem | 2019-05-14 | Paper |
| Algebraic dynamic programming on trees | 2019-05-08 | Paper |
| Innovation in gene regulation: the case of chromatin computation | 2019-02-12 | Paper |
| Reconstruction of pedigrees in clonal plant populations | 2018-12-05 | Paper |
| Mutate now, die later. Evolutionary dynamics with delayed selection | 2018-11-26 | Paper |
| Partially local multi-way alignments | 2018-11-05 | Paper |
| Reconstructing gene trees from Fitch's xenology relation | 2018-10-09 | Paper |
| Alignments as Compositional Structures | 2018-10-09 | Paper |
| Cover-encodings of fitness landscapes | 2018-09-25 | Paper |
| The challenges and scope of theoretical biology | 2018-09-17 | Paper |
| Expansion of gene clusters, circular orders, and the shortest Hamiltonian path problem | 2018-08-22 | Paper |
| Temporal ordering of substitutions in RNA evolution: uncovering the structural evolution of the Human Accelerated Region 1 | 2018-05-24 | Paper |
| Inferring phylogenetic trees from the knowledge of rare evolutionary events | 2018-05-22 | Paper |
| The short ruler on cones | 2018-04-10 | Paper |
| Topological Representation of the Transit Sets of k-Point Crossover Operators | 2017-12-25 | Paper |
| Oriented components and their separations | 2017-10-12 | Paper |
| The mathematics of xenology: di-cographs, symbolic ultrametrics, 2-structures and tree-representable systems of binary relations | 2017-08-11 | Paper |
| Associativity and non-associativity of some hypergraph products | 2016-11-14 | Paper |
| A Software Package for Chemically Inspired Graph Transformation | 2016-09-05 | Paper |
| Automatic Inference of Graph Transformation Rules Using the Cyclic Nature of Chemical Reactions | 2016-09-05 | Paper |
| Algebraic dynamic programming for multiple context-free grammars | 2016-06-30 | Paper |
| Reconstruction of pedigrees in clonal plant populations | 2016-06-22 | Paper |
| Navigating the chemical space of HCN polymerization and hydrolysis: guiding graph grammars by mass spectrometry data | 2016-05-10 | Paper |
| Curve shortening by short rulers | 2016-04-29 | Paper |
| Curve shortening by short rulers | 2016-02-02 | Paper |
| Connectivity spaces | 2016-01-13 | Paper |
| Spiders can be recognized by counting their legs | 2016-01-13 | Paper |
| Rugged and Elementary Landscapes | 2016-01-11 | Paper |
| Spectral classes of regular, random, and empirical graphs | 2015-11-17 | Paper |
| RNA structures with pseudo-knots: graph-theoretical, combinatorial, and statistical properties | 2015-10-27 | Paper |
| Population dependent Fourier decomposition of fitness landscapes over recombination spaces: evolvability of complex characters | 2015-10-27 | Paper |
| Dynamics of autocatalytic replicator networks based on higher-order ligation reactions | 2015-10-27 | Paper |
| The Relaxed Square Property | 2015-09-23 | Paper |
| 50 Shades of Rule Composition | 2015-08-06 | Paper |
| The grid property and product-like hypergraphs | 2015-05-22 | Paper |
| On the complexity of reconstructing chemical reaction networks | 2015-02-04 | Paper |
| Convex cycle bases | 2014-10-02 | Paper |
| Relations between graphs | 2014-05-14 | Paper |
| Unique square property, equitable partitions, and product-like graphs | 2014-01-27 | Paper |
| Regulatory Signals in Genomic Sequences | 2013-07-31 | Paper |
| A survey on hypergraph products | 2013-04-24 | Paper |
| Minimum cycle bases of lexicographic products | 2013-02-07 | Paper |
| Orthology relations, symbolic ultrametrics, and cographs | 2013-02-01 | Paper |
| The Cartesian product of hypergraphs | 2012-06-04 | Paper |
| Diagonalized Cartesian products of \(S\)-prime graphs are \(S\)-prime | 2012-01-11 | Paper |
| Symmetric circular matchings and RNA folding | 2012-01-11 | Paper |
| Phylogenetic Footprinting and Consistent Sets of Local Aligments | 2011-06-29 | Paper |
| Local algorithms for the prime factorization of strong product graphs | 2011-02-19 | Paper |
| Combinatorial vector fields and the valley structure of fitness landscapes | 2010-11-11 | Paper |
| Funnels in energy landscapes | 2010-06-25 | Paper |
| A note on quasi-robust cycle bases | 2010-04-15 | Paper |
| Target prediction and a statistical sampling algorithm for RNA-RNA interaction | 2009-08-05 | Paper |
| A note on fundamental, non-fundamental, and robust cycle bases | 2009-06-24 | Paper |
| Discovering cis-regulatory modules by optimizing barbecues | 2009-06-24 | Paper |
| Approximate graph products | 2009-06-17 | Paper |
| RNA-RNA interaction prediction: partition function and base pair pairing probabilities | 2009-03-19 | Paper |
| Variations on RNA folding and alignment: Lessons from Benasque | 2008-08-18 | Paper |
| https://portal.mardi4nfdi.de/entity/Q5456886 | 2008-04-14 | Paper |
| Saddles and Barrier in Landscapes of Generalized Search Operators | 2007-09-07 | Paper |
| Laplacian eigenvectors of graphs. Perron-Frobenius and Faber-Krahn type theorems | 2007-08-16 | Paper |
| A prime factor theorem for a generalized direct product | 2006-10-16 | Paper |
| Evolving towards the hypercycle: a spatial model of molecular evolution | 2006-06-30 | Paper |
| https://portal.mardi4nfdi.de/entity/Q5469422 | 2006-05-18 | Paper |
| Minimum path bases and relevant paths | 2006-01-23 | Paper |
| NEUTRAL NETWORKS OF INTERACTING RNA SECONDARY STRUCTURES | 2006-01-09 | Paper |
| Computational Science - ICCS 2004 | 2005-12-23 | Paper |
| Graph Laplacians, nodal domains, and hyperplane arrangements | 2004-11-18 | Paper |
| Circuit bases of strongly connected digraphs | 2004-10-27 | Paper |
| Efficient computation of RNA folding dynamics | 2004-08-23 | Paper |
| MOLECULAR REPLICATOR DYNAMICS | 2004-07-01 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4469988 | 2004-06-22 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4421600 | 2004-03-17 | Paper |
| Minimum cycle bases of Halin graphs | 2003-06-25 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4780520 | 2003-04-11 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4800081 | 2003-04-01 | Paper |
| https://portal.mardi4nfdi.de/entity/Q4799620 | 2003-03-25 | Paper |
| Landscapes on spaces of trees | 2003-01-28 | Paper |
| Landscapes and their correlation functions | 2003-01-15 | Paper |
| Autocatalytic replication in a CSTR and constant organization | 2003-01-15 | Paper |
| Discrete nodal domain theorems | 2002-08-07 | Paper |
| Fast Fourier transform for fitness landscapes | 2002-07-04 | Paper |
| Fractal geometry of spin-glass models | 2002-06-11 | Paper |
| Combinatorial landscapes | 2002-04-15 | Paper |
| Random field models for fitness landscapes | 2002-04-08 | Paper |
| The landscape of the traveling salesman problem | 2002-02-18 | Paper |
| Neutrality in fitness landscapes. | 2001-04-25 | Paper |
| Metastable states in short-rangedp-spin glasses | 2001-03-26 | Paper |
| Landscape statistics of the low-autocorrelation binary string problem | 2001-03-05 | Paper |
| RELEVANT CYCLES IN CHEMICAL REACTION NETWORKS | 2001-01-01 | Paper |
| GLASSY STATES IN A SHAKEN SANDBOX | 2001-01-01 | Paper |
| Interchangeability of relevant cycles in graphs | 2000-04-16 | Paper |
| Amplitude Spectra of Fitness Landscapes | 1999-12-16 | Paper |
| Generic properties of combinatory maps: Neutral networks of RNA secondary structures | 1999-10-18 | Paper |
| Selection dynamics in autocatalytic systems: Templates replicating through binary ligation | 1999-05-31 | Paper |
| Combinatorics of RNA secondary structures | 1999-03-22 | Paper |
| The dynamics of locally adaptive parties under spatial voting | 1999-01-12 | Paper |
| Minimal cycle bases of outerplanar graphs | 1998-04-01 | Paper |
| The supersymmetric particle spectrum in orbifold compactifications of string theory | 1998-02-26 | Paper |
| Autocatalytic networks with intermediates. I: Irreversible reactions | 1997-08-24 | Paper |
| Autocatalytic networks with translation | 1997-01-16 | Paper |
| Permanence of sparse catalytic networks | 1996-05-01 | Paper |
| Random walks and orthogonal functions associated with highly symmetric graphs | 1996-04-22 | Paper |
| Dynamics of small autocatalytic reaction networks. II: Replication, mutation and catalysis | 1995-05-28 | Paper |
| Immune networks modeled by replicator equations | 1995-01-31 | Paper |
| Landscapes: Complex optimization problems and biopolymer structures | 1994-12-18 | Paper |
| The influence of mutation on autocatalytic reaction networks | 1994-10-24 | Paper |
| The probability of permanence | 1993-06-29 | Paper |
| Random catalytic reaction networks | 1993-06-29 | Paper |
| Mutation in autocatalytic reaction networks. An analysis based on perturbation theory | 1992-09-27 | Paper |
| Complementary replication | 1992-06-28 | Paper |
| Small autocatalytic reaction networks. III: Monotone growth functions | 1992-06-25 | Paper |
| Full characterization of a strange attractor. Chaotic dynamics in low- dimensional replicator systems | 1991-01-01 | Paper |
| Dynamics of small autocatalytic reaction networks. I: Bifurcations, permanence and exclusion | 1990-01-01 | Paper |
