Defining housekeeping genes suitable for RNA-seq analysis of the human allograft kidney biopsy tissue

BMC Medical Genomics

Table 2 Overlaps^a Between Gene Expression Datasets Derived from Diseased Allograft Kidney & HKG Defined in This Study

Reference	#Biopsies	#of DE transcripts	Biopsy Diagnosis	Normalization method Used to Define HKG
Reference	#Biopsies	#of DE transcripts	Biopsy Diagnosis	TC (%)	UQ (%)	Median (%)	Quantile (%)	TMM (%)	DESeq (%)	TPM (%)	RPKM (%)	Lib_siz (%)
[25]	703	453	ABMR	2(0.40)	2(0.44)	2(0.44)	2(0.44)	1(0.22)	2(0.44)	2(0.44)	8(1.77)	1(0.22)
[26]	708	82	TCMR	0(0)	0(0)	0(0)	0(0)	0(0)	0(0)	0(0)	0(0)	0(0)
[27]	168	206	BKVN	3(1.46)	5(2.43)	3(1.46)	3(1.46)	3(1.46)	3(1.46)	3(1.46)	3(1.46)	3(1.46)
[28]	204	82	Chronic allograft damage	1(1.22)	1(1.22)	2(2.44)	2(2.44)	1(1.22)	1(1.22)	2(2.44)	1(1.22)	2(2.44)

Abbreviations: ABMR antibody mediated rejection, DE differentially expressed, TCMR T-cell mediated rejection, BKVN polyomavirus nephropathy, For other abbreviations, see legend to Table 1
^aThe total number of overlapping genes with the specified datasets is enumerated

ISSN: 1755-8794