Table 1.

Summary of Samples Used in This Study

Sample Typea	Year of Collection	Disease Severity	Immune Status	No. of Samplesb	No. of Paired Samplesb
PBMCs	2009–2010	DF	primary	32	11
			secondary	23	9
		DHF/DSS	primary	5	0
			secondary	8	2
Plasma	2009–2010	DF	primary	16	11
			secondary	13	9
		DHF/DSS	primary	0	0
			secondary	2	2

^aPBMC and plasma samples (including 53 primary and 46 secondary samples) were obtained from individuals aged 6 months to 14 years who were enrolled in the hospital-based pediatric dengue study and tested positive for DENV-3.

^bOnly nucleotide loci with coverage of ≥1,000 reads and locus-specific Sanger quality scores of ≥30 were considered for calculating genome coverage. Samples with ≥50% genome coverage are reported.