Distinct gene loci control the host response to influenza H1N1 virus infection in a time-dependent manner

BMC Genomics

Table 1 Candidate genes in mapped QTL intervals

*Qivr*	Interval	Allele increasing survival	No of genes in interval	No of genes expressed during infection	No of genes with Indels (FS in coding region)	No of genes with SNPs (non-synonymous codons / stop codons)	Cis-eQTLs in non-infected lung	Differentially expressed btw B6/D2
*Qivr*	Interval	Allele increasing survival	No of genes in interval	(up-/down- regulated)	No of genes with Indels (FS in coding region)	No of genes with SNPs (non-synonymous codons / stop codons)	Cis-eQTLs in non-infected lung	Differentially expressed btw B6/D2
2-2	56-68 Mb	D2	72	24 (19)	-	4 / 0	6	3
5	140-153 Mb	D2	179	83 (57)	-	9 / 0	13	10
16	64-78 Mb	B6	52	12 (7)	1^a	5 / 0	4	4
17-2	30-44 Mb	B6	370	158 (104)	1^b	58 / 4^c-f	32	40
19	37– 45 Mb	D2	161	51 (30)	1^g	14 / 1^h	11	4

Up- or down-regulated genes were defined as genes that exhibited at least a 1.5 difference change in expression levels in lungs of infected mice compared to the non-infected controls. Genes were defined as differentially expressed exhibiting at least a 1.5 difference in expression changes in infected lungs of C57BL/6J and DBA/2J. Genes with sequence variations: ^aRobo1, ^bLst1, ^cBrd2, ^dH2-Ab1, ^eH2-Bl, ^fRpp21, ^gTctn3, ^hDhdpsI. Abbreviations: FS: frame shift in coding region, SNP: single nucleotide polymorphism, cis-eQTL: cis regulated expression QTL, B6: C57BL/6J, D2: DBA/2J.

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