11,101 research outputs found

    Random walks on dynamic graphs: Mixing times, hitting times, and return probabilities

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    We establish and generalise several bounds for various random walk quantities including the mixing time and the maximum hitting time. Unlike previous analyses, our derivations are based on rather intuitive notions of local expansion properties which allows us to capture the progress the random walk makes through t-step probabilities. We apply our framework to dynamically changing graphs, where the set of vertices is fixed while the set of edges changes in each round. For random walks on dynamic connected graphs for which the stationary distribution does not change over time, we show that their behaviour is in a certain sense similar to static graphs. For example, we show that the mixing and hitting times of any sequence of d-regular connected graphs is O(n^2), generalising a well-known result for static graphs. We also provide refined bounds depending on the isoperimetric dimension of the graph, matching again known results for static graphs. Finally, we investigate properties of random walks on dynamic graphs that are not always connected: we relate their convergence to stationarity to the spectral properties of an average of transition matrices and provide some examples that demonstrate strong discrepancies between static and dynamic graphs

    Gene expression profiling of Mycobacterium avium subsp. paratuberculosis in simulated multi-stress conditions and within THP-1 cells reveals a new kind of interactive intramacrophage behaviour

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    Recent studies have identified in Mycobacterium avium subsp. paratuberculosis (MAP), already known as a pathogen in ruminants, a potential zoonotic agent of some autoimmune diseases in humans. Therefore, considering the possible risk for public health, it is necessary a thorough understanding of MAP's gene expression during infection of human host as well as the identification of its immunogenic and/or virulence factors for the development of appropriate diagnostic and therapeutic tools.In order to characterize MAP's transcriptome during macrophage infection, we analyzed for the first time the whole gene expression of a human derived strain of MAP in simulated intraphagosomal conditions and after intracellular infection of the human macrophage cell line THP-1 by using the DNA-microarray technology. Results showed that MAP shifts its transcriptome to an adaptive metabolism for an anoxic environment and nutrient starvation. It up-regulates several response factors to oxidative stress or intracellular conditions and allows, in terms of transcription, a passive surface peptidoglycan spoliation within the macrophage along with an intensification of the anabolic activity for lipidic membrane structures.These results indicate a possible interactive system between MAP and its host cell based on the internal mimicry unlike other intracellular pathogens, bringing new hypothesis in the virulence and pathogenicity of MAP and its importance in human health

    Partitioning Well-clustered Graphs with k-Means and Heat Kernel

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    We study a suitable class of well-clustered graphs that admit good k-way partitions and present the first almost-linear time algorithm for with almost-optimal approximation guarantees partitioning such graphs. A good k-way partition is a partition of the vertices of a graph into disjoint clusters (subsets) {Si}i=1k\{S_i\}_{i=1}^k, such that each cluster is better connected on the inside than towards the outside. This problem is a key building block in algorithm design, and has wide applications in community detection and network analysis. Key to our result is a theorem on the multi-cut and eigenvector structure of the graph Laplacians of these well-clustered graphs. Based on this theorem, we give the first rigorous guarantees on the approximation ratios of the widely used k-means clustering algorithms. We also give an almost-linear time algorithm based on heat kernel embeddings and approximate nearest neighbor data structures
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