Fig. 2

Custom bioinformatics pipeline revealed transition in biological processes. a E16CE-P0CE comparison is shown with its bins as boxes that were used to extract gene list for DAVID analysis and the GO terms for functions enriched by these lists were curated (Detailed list of GO terms in Additional file 2: Table S1.1, S1.2). This process is represented by the roman number I. b An example to show the output of Part I, where OR_P0CE bin was chosen from E16CE-P0CE comparison. The genes that enriched for a function in each bin in a were then subjected to pipeline shown in c (II), which starts with gene list entry to GeneMANIA followed by (arrow going up) identification of new partners. (Right) Output of the pipeline in c (II), where the primary gene list (17 genes) that enriched for “Visual Perception” function is shown in the first column. The three iterations of the pipeline in part II are denoted as 1X, 2X and 3X. d (III). Genes in the final list were assigned to their bins in E16CE-P0CE and P0CE-P0NE comparisons. e Output for d (III) with rows showing distribution of genes in bins from E16CE–P0CE comparison and the columns reflecting genes in bins from P0CE-P0NE comparison