Related papers: Information-theoretic View of Sequence Organizatio…
Community assembly is studied using individual-based multispecies models. The models have stochastic population dynamics with mutation, migration, and extinction of species. Mutants appear as a result of mutation of the resident species,…
All types of blood cells are formed by differentiation from a small self-maintaining population of pluri-potential stem cells in the bone marrow. Despite abundant information on the molecular aspects of division, differentiation, commitment…
In real-world systems, phase transitions often materialize abruptly, making it difficult to design appropriate controls that help uncover underlying processes. Some agent-based computational models display transformations similar to phase…
Recent studies of DNA sequence of letters A, C, G and T exhibit the inverse power law form frequency spectrum. Inverse power-law form of the power spectra of fractal space-time fluctuations is generic to the dynamical systems in nature and…
Evolutionary dynamics and patterns of molecular evolution are strongly influenced by selection on linked regions of the genome, but our quantitative understanding of these effects remains incomplete. Recent work has focused on predicting…
Life depends as much on the flow of information as on the flow of energy. Here we review the many efforts to make this intuition precise. Starting with the building blocks of information theory, we explore examples where it has been…
We construct a pathwise formulation of a growing population of cells, based on two different samplings of lineages within the population, namely the forward and backward samplings. We show that a general symmetry relation, called…
In molecular systematics, evolutionary trees are reconstructed from sequences at the tips under simple models of site substitution. A central question is how much sequence data is required to reconstruct a tree accurately? The answer…
Gene products (RNAs, proteins) often occur at low molecular counts inside individual cells, and hence are subject to considerable random fluctuations (noise) in copy number over time. Not surprisingly, cells encode diverse regulatory…
We derive asymptotics of moments and identify limiting distributions, under the random permutation model on m-ary search trees, for functionals that satisfy recurrence relations of a simple additive form. Many important functionals…
Even in the steady-state, the number of biomolecules in living cells fluctuates dynamically; and the frequency spectrum of this chemical fluctuation carries valuable information about the mechanism and the dynamics of the intracellular…
We study the problem of comparing ageing patterns of the lifetime of k-out-of-n systems. Mathematically, this reduces to being able to decide about a stochastic ordering relationship between different order statistics. We discuss such…
The models of $k$-core percolation and interdependent networks (IN) have been extensively studied in their respective fields. A recent study has revealed that they share several common critical exponents. However, several newly discovered…
Experimentally, the phase of the amplitude for electron transmission through a quantum dot (transmission phase) shows the same pattern between consecutive resonances. Such universal behavior, found for long sequences of resonances, is…
Order can spontaneously emerge from seemingly noisy interactions between biological agents, like a flock of birds changing their direction of flight in unison, without a leader or an external cue. We are interested in the generic conditions…
We derive the fluctuation theorem for quantum-state statistics that can be obtained when we initially measure the total energy of a quantum system at thermal equilibrium, let the system evolve unitarily, and record the quantum-state data…
We explore how the asymptotic structure of a random $n$-term weak integer composition of $m$ evolves, as $m$ increases from zero. The primary focus is on establishing thresholds for the appearance and disappearance of substructures. These…
Over the past few years, insights from computer science, statistical physics, and information theory have revealed phase transitions in a wide array of high-dimensional statistical problems at two distinct thresholds: One is the…
We consider the scenario of $n$ sensor nodes observing streams of data. The nodes are connected to a central server whose task it is to compute some function over all data items observed by the nodes. In our case, there exists a total order…
Using the formalism of information theory, we analyze the mechanism of information transduction in a simple one-step signaling cascade S$\rightarrow$X representing the gene regulatory network. Approximating the signaling channel to be…