Yasmine Meroz

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Single particle trajectories are investigated assuming the coexistence of two subdiffusive processes: diffusion on a fractal structure modeling spatial constraints on motion and heavy-tailed continuous time random walks representing energetic or chemical traps. The particles' mean squared displacement is found to depend on the way the mean is taken:(More)
Predicting the function of a protein from its sequence is a long-standing goal of bioinformatic research. While sequence similarity is the most popular tool used for this purpose, sequence motifs may also subserve this goal. Here we develop a motif-based method consisting of applying an unsupervised motif extraction algorithm (MEX) to all enzyme sequences,(More)
It has recently been shown (Kunik et al., PLOS Comput Biol 2007;3(8):e167) that the occurrence of specific peptides (SPs) on sequences of enzymes allows for accurate EC classification of enzymes. We inquire whether these SPs play important roles in bringing about the enzymatic function. This is assessed by cross-checking the occurrence of SPs on enzymes(More)
Experiments on particle motion show that it is often subdiffusive. This subdiffusion may be due to trapping, percolationlike structures, or viscoelastic behavior of the medium. While the models based on trapping (leading to continuous-time random walks) can easily be distinguished from the rest by testing their nonergodicity, the latter two cases are harder(More)
Neuromimetic devices—artificial electronics that mimic the brain’s neurons—could be used to study how the brain works or to design circuits that borrow from the brain’s computing ability. Such devices emulate neurons and the synapses between them with voltage­driven circuits that exchange signals in a connected network. But conventional circuits cannot(More)
It is the common lore to assume that knowing the equation for the probability distribution function (PDF) of a stochastic model as a function of time tells the whole picture defining all other characteristics of the model. We show that this is not the case by comparing two exactly solvable models of anomalous diffusion due to geometric constraints: the comb(More)
Specific Peptides (SPs) have been shown [22] to specify the functions of 93% of the enzymes on which they occur. In this work we will focus on the biological importance and possible roles of SPs in the realisation of enzymatic functions. SPs are shown to provide correct functional classification in problems where conventional methods, based on sequence or(More)
The distribution of the first passage times (FPT) of a one-dimensional random walker to a target site follows a power law F(t)~t(-3/2). We generalize this result to another situation pertinent to compact exploration and consider the FPT of a random walker with specific source and target points on an infinite fractal structure with spectral dimension d(s)<2.(More)
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