Network representation and analysis of energy coupling mechanisms in cellular metabolism by a graph-theoretical approach

S Nath - Theory in Biosciences, 2022 - Springer
Mechanisms coupling the chemical reactions of oxidation and ATP synthesis in cellular
metabolism by the fundamental biological process of oxidative phosphorylation (OX PHOS) …

Inference of chromosome selection parameters and missegregation rate in cancer from DNA-sequencing data

Z Xiang, Z Liu, KN Dinh - Scientific Reports, 2024 - nature.com
Aneuploidy is frequently observed in cancers and has been linked to poor patient outcome.
Analysis of aneuploidy in DNA-sequencing (DNA-seq) data necessitates untangling the …

A mathematical connection between single-elimination sports tournaments and evolutionary trees

MC King, NA Rosenberg - Mathematics Magazine, 2023 - Taylor & Francis
How many ways are there to arrange the sequence of games in a single-elimination sports
tournament? We consider the connection between this enumeration problem and the …

Limit theorems for patterns in ranked tree‐child networks

M Fuchs, H Liu, TC Yu - Random Structures & Algorithms, 2024 - Wiley Online Library
We prove limit laws for the number of occurrences of a pattern on the fringe of a ranked tree‐
child network which is picked uniformly at random. Our results extend the limit law for …

[HTML][HTML] Distributions of 4-subtree patterns for uniform random unrooted phylogenetic trees

KP Choi, G Kaur, A Thompson, T Wu - Journal of Theoretical Biology, 2024 - Elsevier
Tree shape statistics based on peripheral structures have been utilized to study evolutionary
mechanisms and inference methods. Partially motivated by a recent study by Pouryahya and …

[HTML][HTML] Distributions of cherries and pitchforks for the Ford model

G Kaur, KP Choi, T Wu - Theoretical Population Biology, 2023 - Elsevier
Distributional properties of tree shape statistics under random phylogenetic tree models play
an important role in investigating the evolutionary forces underlying the observed …

[PDF][PDF] Diffusion of binary opinions in a growing population with heterogeneous behaviour and external influence.

S Moharir, AS Omanwar… - … & Heterogeneous Media, 2023 - aimspress.com
We consider a growing population of individuals with binary opinions, namely, 0 or 1, that
evolve in discrete time. The underlying interaction network is complete. At every time step, a …

Subtree moments in random phylogenetic trees

A Thompson - 2023 - ueaeprints.uea.ac.uk
Null models for randomly generating trees are useful for detecting and understanding
evolutionary processes in real phylogenetic trees. The two most commonly used null models …