Table 2. Open in new tab Results of...

CSF No.

Virus

Real-time PCR Ct Value

Detected by PCR as Part of Routine Care (Y/N)

Total Metagenomic Reads

No. of Unique Viral Reads

(%) of Viral Reads^a

mNGS Library

HSV

25.01

326 396

0.015

DNA

HSV

28.01

588 504

184

0.031

DNA

HSV

30.36

996 348

0.001

DNA

HSV

23.77

1 145 710

243

0.021

DNA

HSV

28.71

346 166

0.003

DNA

HSV

Unavailable

1 345 954

0.000

HSV

891 566

0.000

VZV

22.7

1 335 288

152

0.011

DNA

Mumps

35.2

975 714

0.001

RNA

Enterovirus

33.36

539 752

0.004

RNA

Enterovirus

34.25

635 310

0.006

RNA

Enterovirus

34.79

765 564

10152

1.326

RNA

Enterovirus

34.78

732 634

0.012

RNA

Enterovirus

31.23

988 668

2415

0.244

RNA

Enterovirus

32.3

594 964

100

0.017

RNA

Enterovirus

35.65

543 912

0.004

RNA

Enterovirus

Negative

579 486

0.000

RNA

Enterovirus

Negative

571 902

0.000

RNA

Enterovirus

Negative

720 042

0.001

RNA

Enterovirus

Negative

511 608

0.000

RNA

Enterovirus

Negative

818 654

0.000

RNA

Enterovirus

Negative

513 428

0.001

RNA

Enterovirus

Negative

1 197 290

0.001

RNA

Enterovirus

Negative

923 908

0.000

RNA

Enterovirus

Negative

993 918

0.000

RNA

Enterovirus

Negative

1 302 784

0.002

RNA

Enterovirus

Negative

1 628 722

0.000

RNA

Enterovirus

Negative

1 181 716

0.002

RNA

Enterovirus

Negative

926 462

0.002

RNA

Enterovirus

Negative

938 524

0.002

RNA

Enterovirus

Negative

1 028 194

0.001

RNA

Enterovirus

Negative

1 239 458

0.000

RNA

Rotavirus

Negative

1 176 486

0.002

RNA

Table 2.

Open in new tab

Results of Viral PCR and Metagenomic Analysis

CSF No.	Virus	Real-time PCR Ct Value	Detected by PCR as Part of Routine Care (Y/N)	Total Metagenomic Reads	No. of Unique Viral Reads	(%) of Viral Reads^a	mNGS Library
1	HSV	25.01	Y	326 396	49	0.015	DNA
2	HSV	28.01	Y	588 504	184	0.031	DNA
3	HSV	30.36	Y	996 348	6	0.001	DNA
4	HSV	23.77	Y	1 145 710	243	0.021	DNA
5	HSV	28.71	Y	346 166	11	0.003	DNA
6	HSV	Unavailable	Y	1 345 954	0	0.000	NA
7	HSV	31	Y	891 566	0	0.000	NA
8	VZV	22.7	Y	1 335 288	152	0.011	DNA
9	Mumps	35.2	Y	975 714	6	0.001	RNA
10	Enterovirus	33.36	ND	539 752	21	0.004	RNA
11	Enterovirus	34.25	ND	635 310	38	0.006	RNA
12	Enterovirus	34.79	ND	765 564	10152	1.326	RNA
13	Enterovirus	34.78	ND	732 634	89	0.012	RNA
14	Enterovirus	31.23	ND	988 668	2415	0.244	RNA
15	Enterovirus	32.3	ND	594 964	100	0.017	RNA
16	Enterovirus	35.65	ND	543 912	21	0.004	RNA
17	Enterovirus	Negative	ND	579 486	2	0.000	RNA
18	Enterovirus	Negative	ND	571 902	2	0.000	RNA
19	Enterovirus	Negative	ND	720 042	4	0.001	RNA
20	Enterovirus	Negative	ND	511 608	1	0.000	RNA
21	Enterovirus	Negative	ND	818 654	2	0.000	RNA
22	Enterovirus	Negative	ND	513 428	5	0.001	RNA
23	Enterovirus	Negative	ND	1 197 290	13	0.001	RNA
24	Enterovirus	Negative	ND	923 908	4	0.000	RNA
25	Enterovirus	Negative	ND	993 918	1	0.000	RNA
26	Enterovirus	Negative	ND	1 302 784	20	0.002	RNA
27	Enterovirus	Negative	ND	1 628 722	7	0.000	RNA
28	Enterovirus	Negative	ND	1 181 716	24	0.002	RNA
29	Enterovirus	Negative	ND	926 462	22	0.002	RNA
30	Enterovirus	Negative	ND	938 524	20	0.002	RNA
31	Enterovirus	Negative	ND	1 028 194	12	0.001	RNA
32	Enterovirus	Negative	ND	1 239 458	4	0.000	RNA
33	Rotavirus	Negative	ND	1 176 486	24	0.002	RNA

CSF No.	Virus	Real-time PCR Ct Value	Detected by PCR as Part of Routine Care (Y/N)	Total Metagenomic Reads	No. of Unique Viral Reads	(%) of Viral Reads^a	mNGS Library
1	HSV	25.01	Y	326 396	49	0.015	DNA
2	HSV	28.01	Y	588 504	184	0.031	DNA
3	HSV	30.36	Y	996 348	6	0.001	DNA
4	HSV	23.77	Y	1 145 710	243	0.021	DNA
5	HSV	28.71	Y	346 166	11	0.003	DNA
6	HSV	Unavailable	Y	1 345 954	0	0.000	NA
7	HSV	31	Y	891 566	0	0.000	NA
8	VZV	22.7	Y	1 335 288	152	0.011	DNA
9	Mumps	35.2	Y	975 714	6	0.001	RNA
10	Enterovirus	33.36	ND	539 752	21	0.004	RNA
11	Enterovirus	34.25	ND	635 310	38	0.006	RNA
12	Enterovirus	34.79	ND	765 564	10152	1.326	RNA
13	Enterovirus	34.78	ND	732 634	89	0.012	RNA
14	Enterovirus	31.23	ND	988 668	2415	0.244	RNA
15	Enterovirus	32.3	ND	594 964	100	0.017	RNA
16	Enterovirus	35.65	ND	543 912	21	0.004	RNA
17	Enterovirus	Negative	ND	579 486	2	0.000	RNA
18	Enterovirus	Negative	ND	571 902	2	0.000	RNA
19	Enterovirus	Negative	ND	720 042	4	0.001	RNA
20	Enterovirus	Negative	ND	511 608	1	0.000	RNA
21	Enterovirus	Negative	ND	818 654	2	0.000	RNA
22	Enterovirus	Negative	ND	513 428	5	0.001	RNA
23	Enterovirus	Negative	ND	1 197 290	13	0.001	RNA
24	Enterovirus	Negative	ND	923 908	4	0.000	RNA
25	Enterovirus	Negative	ND	993 918	1	0.000	RNA
26	Enterovirus	Negative	ND	1 302 784	20	0.002	RNA
27	Enterovirus	Negative	ND	1 628 722	7	0.000	RNA
28	Enterovirus	Negative	ND	1 181 716	24	0.002	RNA
29	Enterovirus	Negative	ND	926 462	22	0.002	RNA
30	Enterovirus	Negative	ND	938 524	20	0.002	RNA
31	Enterovirus	Negative	ND	1 028 194	12	0.001	RNA
32	Enterovirus	Negative	ND	1 239 458	4	0.000	RNA
33	Rotavirus	Negative	ND	1 176 486	24	0.002	RNA

^aDenominators are the total reads of the corresponding samples.

Abbreviations: CSF, cerebrospinal fluid; mNGS, metagenomic next-generation sequencing; ND, not done; PCR, polymerase chain reaction.

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