DOI: 10.1101/484691Dec 3, 2018Paper

Bayesian parameter estimation in non-stationary semiflexible polymers from ensembles of trajectories

BioRxiv : the Preprint Server for Biology
Christopher A Penfold


During the cell-cycle and meiosis, during development, or in response to stress, chromosomes undertake dramatic programs of reorganisation, which can result in major changes to genomic architecture, as well as local changes to chromatin structure via chromatin remodelling and epigenetic modification. The biophysical properties of the genome may therefore vary significantly over time, from region to region, and from cell to cell. Semifleixble polymer models are frequently used to decipher the spatial and temporal aspects of chromosome organisation. Such models allow for parameter estimation from experimental observations (Bystricky et al., 2004, Ding et al., 2006, Koszul et al., 2008, Arbona et al., 2017), and so provide a concise quantification of the state of the system in terms of meaningful biophysical parameters, such as the compaction factor and bending-modulus. Simulation studies using appropriately parameterised models may also provide novel insights, and allow for predictions without confounding pleiotropic effects (Penfold et al., 2012), thus guiding future studies. Most semifleixble polymer models do not explicitly consider the spatial non-stationarity of chromosomes and chromatin. Furthermore, recent advances in chro...Continue Reading

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