🔖 [1810.05095] The Statistical Physics of Real-World Networks | arXiv

Bookmarked [1810.05095] The Statistical Physics of Real-World Networks by Giulio Cimini, Tiziano Squartini, Fabio Saracco, Diego Garlaschelli, Andrea Gabrielli, Guido Caldarelli (arxiv.org)

Statistical physics is the natural framework to model complex networks. In the last twenty years, it has brought novel physical insights on a variety of emergent phenomena, such as self-organisation, scale invariance, mixed distributions and ensemble non-equivalence, which cannot be deduced from the behaviour of the individual constituents. At the same time, thanks to its deep connection with information theory, statistical physics and the principle of maximum entropy have led to the definition of null models reproducing some features of empirical networks, but otherwise as random as possible. We review here the statistical physics approach for complex networks and the null models for the various physical problems, focusing in particular on the analytic frameworks reproducing the local features of the network. We show how these models have been used to detect statistically significant and predictive structural patterns in real-world networks, as well as to reconstruct the network structure in case of incomplete information. We further survey the statistical physics frameworks that reproduce more complex, semi-local network features using Markov chain Monte Carlo sampling, and the models of generalised network structures such as multiplex networks, interacting networks and simplicial complexes.

Comments: To appear on Nature Reviews Physics. The revised accepted version will be posted 6 months after publication

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🔖 [1801.06022] Reconstruction Codes for DNA Sequences with Uniform Tandem-Duplication Errors | arXiv

Bookmarked Reconstruction Codes for DNA Sequences with Uniform Tandem-Duplication Errors by Yonatan Yehezkeally and Moshe Schwartz (arxiv.org)
DNA as a data storage medium has several advantages, including far greater data density compared to electronic media. We propose that schemes for data storage in the DNA of living organisms may benefit from studying the reconstruction problem, which is applicable whenever multiple reads of noisy data are available. This strategy is uniquely suited to the medium, which inherently replicates stored data in multiple distinct ways, caused by mutations. We consider noise introduced solely by uniform tandem-duplication, and utilize the relation to constant-weight integer codes in the Manhattan metric. By bounding the intersection of the cross-polytope with hyperplanes, we prove the existence of reconstruction codes with greater capacity than known error-correcting codes, which we can determine analytically for any set of parameters.
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🔖 A de Bruijn identity for discrete random variables by Oliver Johnson, Saikat Guha

Bookmarked A de Bruijn identity for discrete random variables by Oliver Johnson, Saikat Guha (arxiv.org)
We discuss properties of the "beamsplitter addition" operation, which provides a non-standard scaled convolution of random variables supported on the non-negative integers. We give a simple expression for the action of beamsplitter addition using generating functions. We use this to give a self-contained and purely classical proof of a heat equation and de Bruijn identity, satisfied when one of the variables is geometric.
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