Fig. 3.

Functional enrichment analysis of genes differentially expressed between esophageal intrinsic subsets. Gene expression and functional enrichment in esophageal biopsies of systemic sclerosis (SSc) patients across three subsets as determined by significance of clustering (SigClust) (8490 probes, multiclass significance analysis of microarrays (SAM), false discovery rate (FDR) <1 %). Array tree legend: red arrays – samples from proliferative subset, black arrays – samples from noninflammatory subset, purple arrays – samples from inflammatory subset. Gene cluster legend: red cluster – genes and functional annotations upregulated in proliferative subset, purple cluster – genes and functional annotations upregulated in inflammatory subset, brown cluster – genes and functional annotations upregulated in proliferative and noninflammatory subsets, black cluster – genes and functional annotations upregulated in noninflammatory subset. Representative genes in bold are annotated to the GO term in bold. Additional file 12 contains a complete list of annotations from Additional file 8. Additional file 11 contains the full list of transcripts