| Literature DB >> 35118476 |
Chad J Achenbach1,2,3, Matthew Caputo1, Claudia Hawkins1,2, Lauren C Balmert3, Chao Qi4, Joseph Odorisio1, Etienne Dembele1, Alema Jackson5, Hiba Abbas5, Jennifer K Frediani6,7, Joshua M Levy6,8, Paulina A Rebolledo6,9, Russell R Kempker6,9, Annette M Esper6,10, Wilbur A Lam6,11, Greg S Martin6,10, Robert L Murphy1,2.
Abstract
BACKGROUND: Rapid and accurate testing for SARS-CoV-2 is an essential tool in the medical and public health response to the COVID-19 pandemic. An ideal test for COVID-19 would combine the sensitivity of laboratory-based PCR combined with the speed and ease of use of point-of-care (POC) or home-based rapid antigen testing.Entities:
Year: 2022 PMID: 35118476 PMCID: PMC8811909 DOI: 10.1101/2022.01.24.22269785
Source DB: PubMed Journal: medRxiv
Figure 1.Diagnostic Analyzer for Selective Hybridization (DASH) PCR machine at point-of-care in clinical space (panel A) and workflow schematic (panel B): barcode on cartridge scanned, nasal swab added to cartridge and snapped at break point, cartridge loaded into DASH machine, and reported generated on screen/printed after approximately 15 minutes.
Characteristics of 313 participants with a valid Diagnostic Analyzer for Selective Hybridization (DASH) SARS-CoV-2 PCR test result.
| Characteristic | N (%) or Median (IQR) |
|---|---|
|
| |
| Total | 313 (100) |
| NMH IDC | 112 (36) |
| NMH CRU | 71 (23) |
| Access Community Health Network | 14 (5) |
| Emory RADxtra Clinics | 116 (37) |
|
| 42 (32, 57) |
|
| |
| Female | 204 (65) |
| Male | 107 (34) |
| Not Reported | 2 (1) |
|
| |
| White | 155 (79) |
| Asian | 17 (9) |
| Black or African American | 17 (9) |
| Other or unknown | 8 (4) |
|
| |
| Non-Hispanic or unknown | 187 (95) |
| Hispanic | 10 (5) |
|
| |
| 0 | 55 (18) |
| 1 | 23 (7) |
| 2 | 229 (73) |
| Vaccinated unknown doses | 6 (2) |
|
| |
| Pfizer | 145 (56) |
| Moderna | 89 (34) |
| Johnson & Johnson | 15 (6) |
| Unknown type | 9 (4) |
|
| 140 (101, 171) |
|
| 51 (16) |
|
| 28 (9) |
|
| 50 (16) |
|
| |
| Yes | 195 (62) |
| No | 118 (38) |
|
| |
| Congestion | 78 (40) |
| Cough | 78 (40) |
| Headache | 68 (35) |
| Fatigue | 60 (31) |
| Fever/Chills | 59 (30) |
| Sore/Scratchy Throat | 53 (27) |
| Vomiting/Nausea/Diarrhea | 51 (26) |
| Myalgias | 49 (25) |
| Loss of Taste/Smell | 37 (19) |
| Shortness of Breath | 25 (13) |
| Arthralgias | 25 (13) |
| Abdominal Pain | 20 (10) |
| Photophobia | 15 (8) |
|
| |
| Any co-morbidity | 52 (26) |
| Hypertension | 22 (11) |
| Asthma | 9 (5) |
| Diabetes | 7 (4) |
| Cancer | 6 (3) |
| Immunodeficiency (Not HIV) | 5 (3) |
| Coronary Artery Disease | 4 (2) |
| Anemia | 4 (2) |
| Other | 9 (5) |
Excluding 116 participants from Emory RADxtra site as they did not provide this demographic or clinical information (n=197)
Among those reporting symptoms (n=195); categories are not mutually exclusive
Others were COPD (n=3), renal failure (n=2), stroke/TIA (n=2), HIV (n=1), and MI (n=1)
Among those that received at least 1 vaccine dose prior to testing (n=258)
Summary of Diagnostic Analyzer for Selective Hybridization (DASH) PCR results compared to Cepheid Xpert Xpress (Xpert) PCR results.
| Xpert Positive | Xpert Negative | Total | |
|---|---|---|---|
| DASH Positive | 47 | 4 | 51 |
| DASH Negative | 2 | 260 | 262 |
| Total | 49 | 264 | 313 |
See Table 4 for summary of clinical and testing details from 6 participants with discordant DASH and Xpert results
Diagnostic Analyzer for Selective Hybridization (DASH) POC PCR diagnostic performance and accuracy compared to Cepheid Xpert Xpress PCR as “gold standard.”
| Statistic | n/N | Estimate [95% CI] |
|---|---|---|
| Apparent Prevalence | 49/313 | 0.16 [0.12, 0.21] |
| Sensitivity | 47/49 | 0.96 [0.86, 1.00] |
| Specificity | 260/264 | 0.98 [0.96, 1.00] |
| Overall Diagnostic Accuracy | 307/313 | 0.98 [0.96, 0.99] |
| Positive Predictive Value | 0.85 [0.73, 0.96] | |
| Negative Predictive Value | 0.996 [0.99, 1.00] | |
| Positive Likelihood Ratio | 63.31 [23.90, 167.71] | |
| Negative Likelihood Ratio | 0.04 [0.01, .16] |
Estimated using Bayes’ theorem assuming a prevalence of 8%
Figure 2.Positive (red line) and negative (green line) predictive values of Diagnostic Analyzer for Selective Hybridization (DASH) SARS-CoV-2 PCR test by varying COVID-19 prevalence.
Figure 3.Correlation (panel A) and Bland-Altman (panel B) analyses for comparison of Diagnostic Analyzer for Selective Hybridization (DASH) PCR and Cepheid Xpert Xpress PCR cycle threshold (Ct) values.
Summary of Diagnostic Analyzer for Selective Hybridization (DASH) PCR and Cepheid Xpert Xpress (Xpert) PCR discordant results.
| Discordant Results and Tiebreakers | |||||
|---|---|---|---|---|---|
|
|
|
|
|
| |
| 1, Emory | Detected (42.5) | Not Detected | Not Done; sample discarded | Roche Cobas 6800 (unknown) | Cough, Headache, Sore throat, Fatigue, Diarrhea, Shortness of breath; 4 days; Unvaccinated |
| 2, NMH ID | Detected (39.8) | Not Detected | Not Done; sample discarded | Abbott Alinity M (5, 34.1) | No symptoms; NA; 2 doses (Pfizer) |
| 3, NMH ID | Not Detected | Detected (34.1) | Indeterminate | Cepheid Xpert Xpress (2, 38.2) | Cough, sinus congestion, loss of taste and smell; 17 days; 1 dose (J&J) |
| 4, NMH ID | Not Detected | Detected (29.9) | Detected (36.2) | Thermo Fisher TaqPath COVID-19 Combo Kit (8, Ct unknown) | Scratchy throat, Sore throat, Cough, Runny nose, Fever/chills, Loss of taste or smell; 13 days; 1 dose (J&J) |
| 5, Emory | Not Detected | Detected (33.2) | Detected (36.8) | Not done | Headache, Sore throat, Abdominal pain, Loss of sense of taste or smell; 4 days; 2 doses (Pfizer) |
| 6, Emory | Not Detected | Detected (33.4) | Not Detected | Abbott Alinity M (unknown) | Shortness of breath; 1 day; 2 doses (Pfizer) |
All tiebreaker assays run on Abbott Alinity M platform