a global genome segmentation method for exploration of epigenetic patterns全球基因组分割方法的探索表观遗传模式.pdfVIP
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a global genome segmentation method for exploration of epigenetic patterns全球基因组分割方法的探索表观遗传模式
A Global Genome Segmentation Method for Exploration
of Epigenetic Patterns
1,2. 2,3. 2,3 ¨ 2 2 1,2
Lydia Steiner , Lydia Hopp , Henry Wirth , Jorg Galle , Hans Binder , Sonja J. Prohaska ,
Thimo Rohlf2,4*
1Junior Professorship for Computational EvoDevo, Institute of Computer Science, University of Leipzig, Leipzig, Germany, 2 Interdisciplinary Center for Bioinformatics,
University of Leipzig, Leipzig, Germany, 3 Leipzig Research Center for Civilization Diseases, University of Leipzig, Leipzig, Germany, 4 Max-Planck-Institute for Mathematics
in the Sciences, Leipzig, Germany
Abstract
Current genome-wide ChIP-seq experiments on different epigenetic marks aim at unraveling the interplay between their
regulation mechanisms. Published evaluation tools, however, allow testing for predefined hypotheses only. Here, we
present a novel method for annotation-independent exploration of epigenetic data and their inter-correlation with other
genome-wide features. Our method is based on a combinatorial genome segmentation solely using information on
combinations of epigenetic marks. It does not require prior knowledge about the data (e.g. gene positions), but allows
integrating the data in a straightforward manner. Thereby, it combines compression, clustering and visualization of the data
in a single tool. Our method provides intuitive maps of epigenetic patterns across multiple levels of organization, e.g. of the
co-occurrence of different epigenetic marks in different cell types. Thus, it facilitates the formulation of new hypotheses on
the princ
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