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. 2018 Apr 19;8:6279. doi: 10.1038/s41598-018-23207-7

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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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Comparison between B-cell lymphomas and B-cell-derived lymphoid cell-line models. (A) Venn diagram of consistently significantly up- and down-regulated genes in B-cell lymphoma and B-cell-derived lymphoid cell line samples. (B) UniProt keywords significantly associated with genes that are differentially expressed in B-cell lymphomas and/or B-cell-derived lymphoid cell lines. All considered sets are disjoint. For example, “B-cell lymphoma; CLBL-1” corresponds to the set of genes that are differentially expressed exclusively in both B-cell lymphoma and CLBL-1 samples. The Database for Annotation, Visualization and Integrated Discovery^57,58 (DAVID Bioinformatics Resources 6.8, http://david.abcc.ncifcrf.gov/) was used to test for statistical enrichment of a given UniProt keyword at a FDR ≤ 5% with the set of 17,950 genes represented in the dataset with at least one sequence read count as background. Two-way clustering was performed using the Euclidean distance metric using complete linkage for both columns and rows. Visualization was performed with the R/Bioconductor package pheatmap⁶². Heatmap shades represent the negative log₁₀ of the adjusted P-value (FDR) of enrichment of a given gene set for association with the listed UniProt keyword.