Table 1.

miR predicted to regulate differentially expressed transcripts from four array datasets.

miR functional categories	MsigDb predicted miR based on differentially regulated mRNA transcripts
	(FC > 1.5 Adj. P < 0.01) from 4 trachoma transcriptomes
	Active disease with Ct infection (GSE20436)	Active disease (GSE20430)	Trachomatous scarring disease with inflammation (GSE24383)	Trachomatous trichiasis with inflammation (GSE23705)
Inflammation/infection	let-7 family [205]		miR-511	let-7 family [205]
	miR-125a/b [203]			miR-19a/b
	miR-19a/b			miR-224
				miR-29a/b/c
EMT/fibrosis	miR-200b/c, miR-429			miR-200b/c, miR-429
	miR-506			miR-29a/b/c
				miR-506
				miR-520d
Cell cycle/cancer	let-7 family [205]	miR-518a-2	miR-128a/b	let-7 family [205]
	miR-124a	miR-186	miR-21 [202, 205]	miR-19a/b
	miR-125a/b [203]	miR-130a/b, miR-301	miR-26a/b	miR-22
	miR-15 family		miR-519a/b/c	miR-224
	miR-17-5p, miR-20a/b, miR-106a/b, and miR-519d			miR-25, miR-32, miR-92, miR-363, and miR-367 [205]
	miR-19a/b			miR-516-3p
	miR-218			miR-519a/b/c
	miR-23a/b [203]			miR-520d
	miR-30a/b/c/d/e-5p [203]
	miR-519a/b/c
	miR-524
	miR-9
Other	miR-130a/b, miR-301		miR-153	miR-27a/b
				miR-516-5p

Phenotype comparisons are as follows: normal healthy (N) children aged 1–9 versus those with active trachoma (TF) and Ct infection (GSE20436); children aged 1–9 with TF (with or without Ct infection) versus N (GSE20430); N adults versus adults with trachomatous scarring and clinical inflammation (TSI) (GSE24383); and N adults versus adults with trichiasis and clinical inflammation (TTI) (GSE23705). Enriched miR are grouped into functional categories based on well-characterized roles in the literature. References show published studies that identify miR in bold as differentially expressed in chlamydial infection.