Mathiyalagan et al., 2019 - Meta-Analysis of Grainyhead-Like Dependent Transcriptional Networks: A Roadmap for Identifying Novel Conserved Genetic Pathways. Genes   10(11) Full text @ Genes (Basel)

Figure 1

Meta-analysis pipeline methodology All published grh/Grhl Microarray/RNA-SEQ datasets were converted to a common file format (.csv, A) and imported into MySQL (B). Next, we determined whether genes within each dataset were positively or negatively regulated following functional modulation of grh/Grhl (C), and genes across the datasets were ranked according to their regulation within each dataset. To achieve a common gene ranking, the fold change rank-based scores from individual datasets were aggregated into the sum of scores for each gene, separately for positively and negatively regulated genes. (D). Each gene symbol within all datasets was mapped to the appropriate gene using Ensembl. After mapping, a table of all the human-mapped data was generated, searchable by the original gene symbol in every species (E). For interactive visualization and exploring, the data were exported from the MySQL database, re-structured and uploaded into Ordino (F).

Figure 2

Q-RT-PCR analysis of zebrafish orthologue expression in 48 hours post-fertilisation (hpf) WT and grhl3-/- embryos. Gene expression was normalised to expression of housekeeping gene EF1a. Of the 18 fish orthologues selected, 10 showed differential expression in WT (black bars) vs grhl3-/- (white bars) embryos. * p < 0.05, ** p < 0.01, n.s., non-significant.

Acknowledgments:
ZFIN wishes to thank the journal Genes for permission to reproduce figures from this article. Please note that this material may be protected by copyright. Full text @ Genes (Basel)