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. 2018 Oct 8;8:14908. doi: 10.1038/s41598-018-33213-4

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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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Genes necessary for organogenesis are misregulated in Tip55 mutant embryos. (A,B) Browser tracks of developmental regulators (highlighted in blue) downregulated (A) or upregulated (B) in Tip55^Δ/Δ embryos (Δ/Δ) relative to Tip55^+/+ embryos (+/+). Three biological replicate RNA-seq datasets (normalized for read number) for each geneotype were performed. (C) Average transcripts per million (TPM) for each genotype are shown on a log-log scale with genes significantly differentially expressed in Tip55^Δ/Δ embryos (posterior probability of differential expression; PPDE > 0.95) highlighted with red circles. Several genes of interest labeled with solid red dots with gene names shown. (D) RT-qPCR validation of indicated genes from Tip55^+/+ (+/+) or Tip55^Δ/Δ (Δ/Δ) E8.5 embryos. Genes were selected based on differential expression (up or downregulation) in RNA-seq experiments. Expression levels in biological duplicate Tip55^+/+ or Tip55^Δ/Δ embryos are plotted individually, relative to the average of the Tip55^+/+ (which is set to 1). (E,F) Significantly enriched gene ontology (GO) categories for genes down-regulated or up-regulated significantly (PPDE > 0.95) and |log2 (Fold Change)| >0.6 are depicted in (A) and (B), respectively.