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In evolutionary biology, the speciation history of living organisms is represented graphically by a phylogeny, that is, a rooted tree whose leaves correspond to current species and branchings indicate past speciation events. Phylogenies are…
Alignments, i.e., position-wise comparisons of two or more strings or ordered lists are of utmost practical importance in computational biology and a host of other fields, including historical linguistics and emerging areas of research in…
Rich information on the prebiotic evolution is still stored in contemporary genomic data. The statistical mechanism at the sequence level may play a significant role in the prebiotic evolution. Based on statistical analysis of genome…
Pseudoline arrangements are fundamental objects in discrete and computational geometry, and different works have tackled the problem of improving the known bounds on the number of simple arrangements of $n$ pseudolines over the past…
On semiconductor growth surfaces, surface reconstructions appear. Estimation of the reconstructed structures is essential for understanding and controlling growth phenomena. In this study, the stability of a mixture of two different surface…
We investigated the error-minimization properties of putative primordial codes that consisted of 16 supercodons, with the third base being completely redundant, using a previously derived cost function and the error minimization percentage…
Understanding how ancient Mesoamerican societies integrated mathematical ideas into calendrical design and monumental architecture requires approaches that acknowledge their distinct epistemological frameworks. While explicit textual…
Mitochondrial DNA from fourteen archaeological samples at the Ural State University in Yekaterinburg, Russia was extracted to test the feasibility of ancient DNA work on their collection. These samples come from a number of sites that fall…
The national census is an essential data source to support decision-making in many areas of public interest. However, this data may become outdated during the intercensal period, which can stretch up to several decades. We developed a…
In 2018, Sz\"{o}ll\H{o}si and \"{O}sterg\r{a}rd used a computer to enumerate sets of equiangular lines with common angle $\arccos(1/3)$ in dimension $7$. They observed that the numbers $\omega(n)$ of sets of $n$ equiangular lines with…
Jules Bloch's work on formation of the Marathi language has to be expanded further to provide for a study of evolution and formation of Indian languages in the Indian language union (sprachbund). The paper analyses the stages in the…
The classification of Intangible Cultural Heritage (ICH) images in the Mekong Delta poses unique challenges due to limited annotated data, high visual similarity among classes, and domain heterogeneity. In such low-resource settings,…
Irregular bone remodeling is associated with a number of bone diseases such as osteoporosis and multiple myeloma. Computational and mathematical modeling can aid in therapy and treatment as well as understanding fundamental biology.…
Humans readily recognize objects from sparse line drawings, a capacity that appears early in development and persists across cultures, suggesting neural rather than purely learned origins. Yet the computational mechanism by which the brain…
Chromosomal rearrangements, which shuffle DNA throughout the genome, are an important source of divergence across taxa. Using a paired-end read approach with Illumina sequence data for archaic humans, I identify changes in genome structure…
Constructing historical language models (LMs) plays a crucial role in aiding archaeological provenance studies and understanding ancient cultures. However, existing resources present major challenges for training effective LMs on historical…
Computation with the Ising model is central to future computing technologies like quantum annealing, adiabatic quantum computing, and thermodynamic classical computing. Traditionally, computed values have been equated with ground states.…
Recent years have seen dramatic progress in the development of techniques for measuring the activity and connectivity of large populations of neurons in the brain. However, as these techniques grow ever more powerful---allowing us to even…
Mesh numbering is a critical issue in Finite Element Methods, as the computational cost of one analysis is highly dependent on the order of the nodes of the mesh. This paper presents some preliminary investigations on the problem of mesh…
We discuss the skeleton as a probe of the filamentary structures of a 2D random field. It can be defined for a smooth field as the ensemble of pairs of field lines departing from saddle points, initially aligned with the major axis of local…