Table 5.

Differential gene expression in T12 surveillance biopsy samples from the three groups on the basis of gene specificity for lowPIPKAT, broad inflammatory cells, and combined kidney and inflammatory cells

Parameter	Gene Numbera	Normal (n = 25) versus IF Alone (n = 24)			Normal (n = 25) versus IF+i (n = 16)			IF Alone (n = 24) versus IF+i (n = 16)
		Gene Number P < 0.05b	% Alteredc	Pd	Gene Number P < 0.05	% Altered	P	Gene Number P < 0.05	% Altered	P
All included genes	8473	188	2		2522	30		2487	29
lowPIPKAT genes	1395	30	2	0.8	292	21	1.0	268	19	1.0
Broad inflammatory cell genes	499	4	1	0.01	150	30	2 × 10−32	141	28	2 × 10−24
Common kidney and inflammatory genes	6475	154	2	0.5	2063	67	0.002	2064	32	5 × 10−7

^aRefers to total number of detectable genes within each categorization (see Supplemental Methods for details).

^bRefers to the number of genes in each category with significantly altered expression (by t test) between groups.

^cRefers to the proportion of the genes in each category with significantly altered expression between groups.

^dRefers to the result of Fisher exact test for increased expression of category-specific genes in one group compared with the other.