. Author manuscript; available in PMC: 2019 Jul 24.

Published in final edited form as: Pharmacogenomics J. 2018 Nov 16;19(4):375–389. doi: 10.1038/s41397-018-0063-z

Table 5: Single Variants Associated with Tacrolimus Adjusted Troughs, Identified in European American Kidney Transplant Recipients of (p<0.005).

The table indicates the chromosome location of the variants based on GRCH37 assembly, the variant alternate allele, the consequence effect of the variant on the Ensembl transcripts, the gene symbol, the intron number out of the total number in the gene, Existing known variants’ rs numbers if available and the allele frequencies from 1000 Genomes project as given by VEP software. AF = global, AFR = African population, AMR = American population, EUR = European population, EAS = East Asian population, SAS = South Asian population. Also shown are the related test p-values for association with Tac troughs.

Location	Allele	Consequence	Symbol	Intron	Existing_variation	Allele frequencies						Pvalb¹	Pvalc²
Location	Allele	Consequence	Symbol	Intron	Existing_variation	AF	AFR	AMR	EAS	EUR	SAS	Pvalb¹	Pvalc²
4:146068652-146068652	T	intron_variant	OTUD4	13/20	rs12502109	0.31	0.37	0.31	0.47	0.13	0.26	0.001	0.002
20:43074372-43074372	C	downstream_gene_variant	14kb 3’ of HNF4A	-	rs1321826	0.16	0.32	0.16	0.03	0.11	0.15	0.002	0.004
20:43075161-43075161	A	downstream_gene_variant	14kb 3’ of HNF4A	-	rs7272694	0.16	0.32	0.16	0.03	0.11	0.15	0.002	0.004
20:43075280-43075280	C	downstream_gene_variant	15kb 3’ of HNF4A	-	rs7267639	0.16	0.32	0.16	0.03	0.11	0.15	0.002	0.004
5:142803548-142803548	G	intron_variant	NR3C1	1/8	rs72802815	0.25	0.23	0.42	0.10	0.34	0.23	0.005	0.004
16:16203559-16203559	T	intron_variant	ABCC1	21/29	rs35090860	0.21	0.06	0.14	0.40	0.21	0.25	0.005	0.003
16:16208172-16208172	T	intron_variant	ABCC1	22/29	rs45443999	0.20	0.04	0.14	0.40	0.19	0.25	0.005	0.003
16:16208173-16208173	C	intron_variant	ABCC1	22/29	rs45624535	0.20	0.04	0.14	0.40	0.19	0.25	0.005	0.003
4:146001613-146001613	T	intron_variant	ANAPC10	3/4	rs35098431	0.35	0.51	0.32	0.47	0.13	0.26	0.005	0.004

-Tac troughs were adjusted in the extreme phenotype model for clinical variables and genotypes CYP3A5*3 and CYP3A4*22.

Pvalb: Logistic regression with permutation applied to calculate p-value in the case-control trait test.

Pvalc: Linear regression applied to obtain p-values in the continuous trait test