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. 2017 Dec 20;7:17946. doi: 10.1038/s41598-017-17858-1

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© The Author(s) 2017

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Functional annotation of the features identified based on a patch-analysis. (a) The confusion matrices for PatchNet in classifying between NIH/3T3 and BJ as well as between BJ and MCF10A. (b) Representative examples of NIH/3T3 nuclei (upper row) together with the features indicative of NIH/3T3 (shown in white) as learned by PatchNet (bottom row). The red masks show examples of regions that were identified by PatchNet as being indicative of NIH/3T3. The predicted NIH/3T3 indicative regions correspond to heterochromatin foci. (c) Representative examples of MCF10A nuclei (upper row) together with the features indicative of MCF10A (shown in white) as learned by PatchNet (bottom row). The red masks show examples of regions that were identified by PatchNet as being indicative of MCF10A. The predicted MCF10A indicative regions correspond to interfaces between heterochromatin and euchromatin regions. (d) BJ nuclei were stained with CENP-A and patches of size 11 × 11 pixels were extracted around the CENP-A marks (left image). The table compares the classification accuracy between CENP-A and non-CENP-A patches, showing that CENP-A patches are more often misclassified as MCF10A.