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. 2019 Jan 24;9:485. doi: 10.1038/s41598-018-37284-1

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© The Author(s) 2019

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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Co-expression network analysis reveals temporal gene clusters that are correlated with PC development. (A) Genes assigned to the two WGCNA modules with statistically significant functional annotations (q < 0.05), expressing patterns of negative (WGCNA_neg) and positive (WGCNA_pos) fold-change over time, respectively. WGCNA_neg is significantly enriched for ontology terms associated with RNA processing, while WGCNA_pos is significantly enriched for ontology terms associated with neuron formation and neurological disorders. See also Supplementary Figs S2 and S3. Expression values are normalized and standardized to a mean of zero and standard deviation of 1. The eigengene of the cluster is displayed in yellow. (B) Statistically significant differentially expressed genes over time, separated in clusters of negative (DESeq 2_neg) and positive (DESeq 2_pos) fold-change, respectively. The DESeq 2 clusters show strong intersection with those identified by WGCNA and provide robustness for downstream analyses. Both WGCNA and DESeq 2 clusters contained similarly enriched ontology terms. See also Supplementary Fige S4 and Supplementary Table S3. Each gene within the module is plotted as a line of increasing colour intensity with decreasing q value, as displayed in the colour scale. Expression values are normalized and standardized to a mean of zero and standard deviation of 1. The eigengene of the cluster is displayed in yellow.