Carla Goldman

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We examine the size and spatial distributions of the protein-coding and control segments of genes in DNA nucleotide sequences from GenBank. Phylogenetic analysis of these data suggests the presence of spatial order in sequences of higher organisms, irrespective of the nature of nucleotide base content. This is characterized by defined two-point correlation(More)
We study the thermodynamics of a two-dimensional polydisperse ideal gas model of different species of aggregates. We show that if these aggregates are distinguished not only by their sizes but also by their ability to display shape fluctuations, the system presents dominance of one or other species, depending on the temperature region. This result, which(More)
We analyze the effects of competing reactions to the efficiency of enzymatic splitting of pyrimidine dimers formed in DNA by the incidence of ultraviolet radiation. This is accomplished with the aid of a formula that expresses the efficiency of the repair in terms of parameters that regulate the reaction rates for primary and for back long-range electron(More)
We consider the dynamics of cargo driven by a collection of interacting molecular motors in the context of an asymmetric simple exclusion processes (ASEP). The model is formulated to account for i) excluded volume interactions, ii) the observed asymmetry of the stochastic movement of individual motors and iii) interactions between motors and cargo. Items(More)
The collective behavior of molecular motor proteins have been investigated in the literature using models to describe the long-time dynamics of a unidimensional continuum motor distribution. Here, we consider the phenomena related to the transport of particles (vesicles, organelles, virus, etc) in the realm of these continuum motor systems. We argue that(More)
We apply methods from statistical physics (histograms, correlation functions, fractal dimensions, and singularity spectra) to characterize large-scale structure of the distribution of nucleotides along genomic sequences. We discuss the role of the extension of noncoding segments (“junk DNA”) for the genomic organization, and the connection between the(More)
The hopping model for cargo transport by molecular motors introduced in Refs. [12, 13] is extended in order to incorporate the movement of cargo-motor complexes (C-MC). Hopping processes in this context expresses the possibility for cargo to be exchanged between neighboring motors at a microtubule where the transport takes place. Jamming of motors is(More)
We consider a nonlinear partial differential equation of conservation type to describe the dynamics of vesicular stomatitis virus observed in aliquots of fixed particle number taken from an evolving clone at periodic intervals of time [5]. The changes in time behavior of fitness function noticed in experimental data are related to a crossover exhibited by(More)
Evolutionary dynamics experienced by mixed microbial populations of cooperators and cheaters has been examined in experiments in the literature using a protocol of periodic dilution to investigate the properties of resilience and adaptability to environmental changes. Data depicted on an appropriate phase diagram indicate, among other features, a stable(More)
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