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. 2018 Jul 31;8:11474. doi: 10.1038/s41598-018-29847-z

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© The Author(s) 2018

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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The genome-wide landscape of oscillating genes in LCL-HO and HD-MY-Z revealed cell-specific circadian regulation in HL. (A) Depicted are expression values for core-clock genes for LCL-HO (blue) and HD-MY-Z (red) retrieved from the time course array data. (B) Oscillating genes present in LCL-HO and the HL cell line HD-MY-Z, respectively, phase ordered and normalized to values between −1 and 1. (C,D) Enrichment analysis (KEGG pathways) for the previously described genes in the different cell lines. (E) TNF relative gene expression retrieved from the array data in LCL-HO (p = 0.0006) and HD-MY-Z (p = 0.0104), respectively. (A,E) Based on the data from the time course HTA2.0 microarray experiments we performed an additional normalization in the range 1, −1. The normalized data was used to fit a curve with Local Polynomial Regression Fitting. The genes were analysed with the MetaCycle R package for a period set to 21 to 27 hours. The combined Metacycle p-values are displayed for each gene.