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. 2016 May 19;8:57. doi: 10.1186/s13073-016-0310-3

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© Malysheva et al. 2016

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 4 — Gene regulatory network (GRN) of the BJ stepwise transformation system. a GRN of immortalized BJEL cells. b GRN of transformed BJELM cells. Chromatin remodelers/modulators are represented as diamond-shaped nodes, while other genes, highly connected “hubs”, and “bottlenecks” are represented as circles. The differential expression levels at immortalization and during the transformation steps were colored per node in a heat map format such that the dynamic changes could be visualized. Dashed lines separate the GRN into seven segments corresponding to seven (i to vii) gene co-expression pathways. Functionally related genes are circled under an enriched GO term (DAVID, p < 0.05)