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. 2017 Dec 15;7:17665. doi: 10.1038/s41598-017-17751-x

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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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Differential gene expression of Mtb H37Rv in presence of lipids. Conditions with dextrose were used as control and growth stages were used as batch effect. Counts were normalized using edge R, all genes with a CPM greater than 1 in at least 2 samples were used in the analysis. 368 significant differentially expressed genes were found. (A) Volcano plot (on the left) and its Venn diagram (on the right) where 185 genes with diminished expression and 183 genes with increased expression in presence of lipids are specified. (B) PCA and heatmap plots of the 368 differential expressed genes that were rescaled between −3 and 3, clustering was based on the Pearson correlation. (C) Number of differentially expressed genes by functional categories are shown, circle sizes are proportional to the number of genes with significant differential expression, total number of genes per functional category listed in tuberculist are indicated in parenthesis. (D) Differential functional categories analysis. Only significant expressed categories (FDR < 0.05) are indicated.