Standardization of Data Analysis for RT-QuIC-Based Detection of Chronic Wasting Disease
Abstract
:1. Introduction
2. Results
2.1. Literature Review
2.2. Maxpoint Ratio, Rate of Amyloid Formation, and Time-to-Threshold Distributions
2.3. T and Rate of Amyloid Formation Determinations
2.4. Distribution Differences between Lymph Nodes
2.5. Correlation between MPR and RAF
2.6. Machine and Batch Effects on MPR and RAF
2.7. Comparison of RT-QuIC to ELISA
3. Discussion
4. Materials and Methods
4.1. Literature Review
4.2. Source Population and Sample Processing
4.3. RT-QuIC Methods and recPrP Preparation
4.4. Maxpoint Ratio and Rate of Amyloid Formation Calculations
4.5. Statistical Analysis
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Threshold Used | Positivity Determination | Disease | Sample Type | References |
---|---|---|---|---|
20 stdev | Mann–Whitney u-test | AD | Brain | [52] |
ine 10 stdev | 50% of replicates | BSE | CSF | [21,26] |
10 stdev | 25% of replicates | BSE | Brain | [7] |
ine 20 stdev | 50% of replicates | CJD | Skin | [39] |
10 stdev+10% | 50% of replicates | CJD | CSF | [5] |
10 stdev | 50% of replicates | CJD | CSF; OM | [17,34,40,41,46] |
5 stdev | 50% of replicates | CJD | Brain | [43] |
5 stdev | 40% of replicates | CJD | CSF | [44] |
3 stdev | 50% of replicates | CJD | CSF | [22,42] |
>10,000 RFU | 50% of replicates | CJD | CSF | [48] |
ine 10 stdev | Mann–Whitney u-test | CWD | Muscle; LN | [1,18] |
10 stdev | 2/3 of replicates | CWD | Blood; Feces; RAMALT | [19] |
10 stdev | 50% of replicates | CWD | Ticks; Feces | [36,57] |
10 stdev | 25% of replicates | CWD | Brain | [56] |
10 stdev | 1/3 of replicates | CWD | RAMALT | [23,30] |
10 stdev | Avg of reps >T | CWD | RAMALT | [28,29] |
5 stdev | Mann–Whitney or Wilcoxon signed rank | CWD | Buffy-coat | [53] |
5 stdev | Mann–Whitney u-test | CWD | Brain | [20,27,55] |
5 stdev | Fisher’s exact test | CWD | Feces | [25] |
5 stdev | Unpaired t-test | CWD | LN; Brain | [37] |
5 stdev | One sample t-test | CWD | LN; Brain | [32] |
5 stdev | 50% of replicates | CWD | Feces | [31] |
5 stdev | Avg of reps >T | CWD | Brain; LN | [33,35] |
4 stdev | 50% of replicates | CWD | Blood | [49] |
max signal of pos ctrl | 1/3 of replicates | CWD | Brain | [24] |
ine 5 stdev | Mann–Whitney or Wilcoxon signed rank | CWD; BSE | Brain | [38] |
5 stdev | Avg of reps >T | CWD; BSE | Brain | [54] |
ine 3 stdev | 50% of replicates | FFI | Brain | [47] |
ine 30 stdev | 50% of replicates | PD | CSF | [45] |
10 stdev+10% | 50% of replicates | PD | Brain | [3,50] |
>120 RFU | 50% of replicates | PD | Brain | [51] |
ine 10 stdev | 50% of replicates | Sc | Brain | [6] |
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Rowden, G.R.; Picasso-Risso, C.; Li, M.; Schwabenlander, M.D.; Wolf, T.M.; Larsen, P.A. Standardization of Data Analysis for RT-QuIC-Based Detection of Chronic Wasting Disease. Pathogens 2023, 12, 309. https://doi.org/10.3390/pathogens12020309
Rowden GR, Picasso-Risso C, Li M, Schwabenlander MD, Wolf TM, Larsen PA. Standardization of Data Analysis for RT-QuIC-Based Detection of Chronic Wasting Disease. Pathogens. 2023; 12(2):309. https://doi.org/10.3390/pathogens12020309
Chicago/Turabian StyleRowden, Gage R., Catalina Picasso-Risso, Manci Li, Marc D. Schwabenlander, Tiffany M. Wolf, and Peter A. Larsen. 2023. "Standardization of Data Analysis for RT-QuIC-Based Detection of Chronic Wasting Disease" Pathogens 12, no. 2: 309. https://doi.org/10.3390/pathogens12020309