The derepression of transposable elements in lung cells is associated with the inflammatory response and gene activation in idiopathic pulmonary fibrosis

Table 2 Enrichment analysis of individual elements in three cell types. Significant changes (p.adjusted < 0.05) between the donors and IPF patients in the WL, AT2 and AM are shown

	Differential expression	No differential expression	Total in the genome	Fisher exact test of enrichment
WL
LINE	4	179	183	0.75
LTR	11	577	588	0.75
SINE	0	63	63	0.61
AT2
LINE	19	164	183	0.56
LTR	57	531	588	0.69
SINE	2	61	63	0.11
AM
LINE	1	182	183	0.31
LTR	11	577	588	0.36
SINE	1	62	63	1.00

The TE changes are shown at the family level whereas each number represents number of TEs subfamily changes. WL whole lung, AT2 alveolar type II cell, AM alveolar macrophage. Enrichment analysis of individual families was performed using Fisher exact test where each family was tested against the sum of other families for each cell type. BH adjusted p-values are shown. Only LINE, SINE and LTR families were considered

ISSN: 1759-8753