Figure 3 - figure supplement 1

Schema and validation data for transcriptional profiling during OFC.

(a) Schema for segmental microdissection of OFM samples prior to RNA extraction and processing for RNAseq. At least 10 fissures from independent chick embryos were used per sample, per stage. Care was taken to exclude capture of the proximal/pecten OFM region. Lenses were included for whole eye samples, for which four whole-eyes from independent embryos were used. (b) Heat map for E5 (HH.St25-27) RNAseq data shows strict domain specificity for genes with previously known spatial restriction (Cho and Cepko, 2006). (c) Heatmap showing a correlation coefficient of >0.9 (Spearman’s rank correlation) for genome-wide expression levels for all RNAseq samples. Note that sample Fiss_E5_3 is an outlier. (d) GOrilla Gene Ontology analysis for upregulated DEGs at all-stages using ‘Processes’ revealed significant enrichment for five processes. Number of genes in intersection is given in brackets, FDR q values are given for each ontology. GO terms and descriptions: GO:0007423, sensory organ development; GO:0001654, eye development; GO:0007155, cell adhesion; GO:0022610, biological adhesion, GO:0051239, regulation of multicellular organismal process.