Table 2 Sequence results using NGS for detection of pathogens from BALF samples.
Pt No. | NGS results | Conventional method results | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
DNA-sequencing | RNA-sequencing | Bacterial culture | Viral antigen | PCR | |||||||
Total reads | Detected pathogen | Number of reads | RPM | Total reads | Detected pathogen | Number of reads | RPM | ||||
1 | 2,603,238 | S. maltophilia | 100,083 | 38,446 | 2,303,752 | HMPV | 322 | 140 | P. aeruginosa (±) | HMPV | — |
P. aerginosa | 16,947 | 6,510 | |||||||||
2 | 2,631,210 | H. influenzae | 103,738 | 39,426 | 2,937,810 | HRSV-A | 342 | 116 | H. influenzae (2+) | HRSV | HRSV-A |
3 | 2,071,836 | — | — | — | 2,676,318 | HRV-B | 50,138 | 18,734 | — | — | HRV |
4 | 2,754,852 | M. catarrhalis | 2,428 | 881 | 2,946,090 | — | — | — | M. catarrhalis (2+) | — | — |
5 | 3,608,962 | — | — | — | 2,402,562 | HRSV-A | 1,612 | 671 | S. pneumoniae (±) | — | HRSV-A |
6 | 1,489,176 | — | — | — | 1,685,054 | HRSV-B | 83,212 | 49,382 | H. influenzae (2+) | HRSV | HRSV-B |
7 | 1,660,692 | — | — | — | 1,531,292 | EV-D68 | 115,343 | 75,324 | — | — | — |
8 | 1,419,054 | — | — | — | 1,549,278 | EV-D68 | 784,380 | 506,287 | — | — | — |
9 | 1,373,122 | — | — | — | 1,478,618 | — | — | — | — | — | CMV |
10 | 1,581,982 | — | — | — | 1,517,564 | — | — | — | — | HMPV | — |
11a | 1,252,872 | — | — | — | 1,431,422 | — | — | — | — | — | — |
