Abstract
21
Retrospective epidemiological models are powerful tools to understand its transmission 22
dynamics and to assess the efficacy of different control measures. This study 23
summarises key epidemiological parameters of COVID-19 for retrospective 24
mathematical and clinical modeling. A review of scientific papers and preprints 25
published in English between 1 January and 15 April 2020 in PubMed, MedRxiv and 26
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NOTE: This preprint reports new research that has not been certified by peer review and should not be used to guide clinical practice.
2
BioRxiv was performed to obtain epidemiological parameters of the initial stage of 27
COVID-19 pandemic in Asia. After excluding articles with unacceptable risks of bias 28
and those that remained as preprints as of 15 November 2021, meta-analyses were 29
performed to derive summary effect estimates from the data collected using the 30
statistical software R. Out of 4,893 articles identified, 88 provided data for 22 31
parameters for the overall population and 7 specifically for children. Meta-analyses 32
were conducted considering time period as a categorical moderator when it was 33
statistically significant. The results obtained are essential for building more reliable 34
models to help clinicians and policymakers improve their knowledge on COVID-19 and 35
apply it in future decisions. 36
37
Introduction
38
Without any doubt the COVID-19, caused by the novel coronavirus SARS-CoV-2, is 39
the most significant global public health threat in recent decades. It was declared a 40
“Public Health Emergency of International Concern” and “pandemic” by the World 41
Health Organization (WHO) in 30 January and 11 March 2020, respectively. Since it 42
was first detected in December 2019 in Wuhan, China, it has spread over 215 countries 43
and territories, with almost 600 million confirmed cases and more than 6,4 million 44
deaths worldwide as of 21 August 2022 1, although these figures are likely 45
underestimated 2–4. 46
47
Currently, preventive therapeutic strategies are being implemented worldwide, to a 48
greater or lesser extent depending on the country 5. Although vaccines are effective in 49
reducing infection and contributing to community protection by reducing the likelihood 50
of virus transmission, their effectiveness varies among the different variants of SARS-51
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3
COV-2 that have emerged 6,7. In this context, where the appearance of the Omicron 52
variant has once again placed restrictions and non-pharmaceutical actions on the agenda 53
of many governments 8, retrospective epidemiological modeling may allow us to gain 54
understanding on the chronology of the epidemic progression, the effectiveness of 55
different control measures, etc. 4,9,10 which can be very useful in trying to contain 56
ongoing and future outbreaks. 57
58
Since the beginning of the pandemic, thousands of preprints and papers have been 59
published about COVID-19. Given the high volume of existing literature and the 60
heterogeneity of the studies on COVID-19, it has been very difficult for researchers to 61
agree on the most accurate parameters. Additionally, most studies have examined only 62
few variables, making data mining particularly onerous and tedious. A broader 63
perspective on generalised values for the key parameters would be extremely useful for 64
improving retrospective epidemiological models and the knowledge of past decisions 65
and events, which could help future decisions. A meta-analysis is the best tool to 66
systematically assess the results of previous research to derive conclusions. Thus, the 67
aim of this study was to identify and summarise key epidemiological parameters of the 68
initial stages of COVID-19 from the vast existing literature through meta-analysis in 69
order to make that scattered information useful for retrospective mathematical modeling 70
and also, when data are available, for comparative analysis with other pandemic stages, 71
where new variants predominate over the initial one. 72
73
Results
74
During the study period, 6,969 scientific articles related to COVID-19 were published 75
or posted in the consulted libraries. Those were filtered using the keywords and terms 76
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4
described in the method section and the titles and abstracts screened, leaving the full 77
text of 361 papers to review. Of those, 131 contained extractable data (see 78
Supplementary Table S1), but only 88 were considered in our meta-analysis for one or 79
more parameters (see Figure 1, the PRISMA flow diagram, for details in exclusion 80
criteria). Unacceptable risk of bias was detected in 5 studies, mainly due to unclear 81
selection approach, and insufficient follow-up period (see the complete evaluation in the 82
Supplementary Table S2). As of 15 November 2021, 13 papers remained unpublished, 83
and they were also excluded. 84
85
Pooled means or percentages and their associated 95% CI were determined for 22 86
epidemiological parameters for the general population (disaggregated into survivor/non-87
survivor when possible) and 7 for children. Tables 1 and 2 show the results provided by 88
the meta-analysis for those parameters for which, having performed the meta-regression 89
using the period of admission of the patients in the hospital as a categorical moderator, 90
the results were not significant and those that did, respectively. 91
For the general population parameters, the number of studies considered ranged from 3 92
to 27 (median 8.5, Q1 6 and Q3 15.75) and the number of patients involved ranged from 93
187 to 5771 (mean 1692), whereas for children studies ranged from 3 to 4 (median 3, 94
Q1 3 and Q3 4) and patients from 25 to 945 (mean 341). The estimated I2, τ 2, and Q 95
(values summarised in the Supplementary Meta-analysis Report for each parameter) 96
indicated that high heterogeneity was present for most parameters (except for onset of 97
symptoms to hospital ICU admission) which reduced their usefulness. The last two 98
columns of both tables also show the results of the parameters for the general 99
population that allowed removal of outliers without compromising their utility, i.e. 100
yielding a lower heterogeneity (values summarised in the Supplementary Meta-analysis 101
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5
Report) and maintaining a minimum of 3 included studies. Given these constraints, the 102
number of studies considered ranges from 3 to 12 (median 7, Q1 5 and Q3 9.75), with 103
the parameters with 9 or more studies included: onset of symptoms to hospital admission 104
(all), hospital stay length (survivor, period B), asymptomatic patients, percentage of 105
ICU admissions, percentage of deaths, percentage of discharged and percentage in 106
hospital at the end of the study. Parameters with fewer than 5 studies comprised onset of 107
symptoms to hospital admission (survivor), hospital stay length (all patients, both 108
periods), percentage of deaths from ICU and percentage of discharged from ICU. For 109
children, all parameters were initially estimated from fewer than 5 studies and neither 110
the meta-regression with period as moderator nor outlier diagnosis were carried out. 111
112
Forest plots for each parameter (considering all studies or group by period if significant 113
differences between the two subsets were detected) are provided in the Supplementary 114
Material
(see Supplementary Figures S1-31). In all cases, a summary of the results is 115
provided when all the studies are included in the meta-analysis, and with 116
outliers/influencers removed if any. 117
118
Discussion
119
We present a review and meta-analysis of essential epidemiological parameters (22 for 120
the general population, 7 for children) of COVID-19 based on Asian studies during the 121
initial stage of the pandemic. Our main goal was to provide a summary of key 122
parameters useful for modeling, and therefore an exhaustive clinical explanation of our 123
Results
is beyond the scope of this study. Discussion of the most relevant findings 124
follows. 125
126
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6
In order to see the influence of the changes in the way of dealing with the virus resulting 127
from the COVID-19 Forum convened by WHO on the key epidemiological parameters 128
we register the time period of the different studies. We classified and, therefore 129
compared, studies with cases occurring prior February 12, 2020 (period A) and studies 130
with patients enrolled before and after (period B). Significant results in the meta-131
regression considering period as a categorical moderator were obtained for hospital stay 132
length (all patients), hospital stay length (survivor), ICU stay length (non-survivor) and 133
onset of symptoms to hospital admission (survivor)(table 2). Note that since period A is 134
included in period B, the differences are more remarkable. The length of hospital stay 135
(both for all patients and for the survivors) were longer in period B than in A, probably 136
because, but not limited to, the shortage of medical resources during period A. On the 137
other hand, results for ICU stay length (non-survivor) and onset of symptoms to hospital 138
admission (survivor), are not conclusive because only one and two studies are available 139
in period B and period A, respectively. 140
141
From the parameters analysed in both groups (overall population versus children), 142
Results
point that children had longer incubation periods, higher percentages of 143
asymptomatic individuals, fewer ICU admissions and shorter hospital stays. This 144
suggests, as found previously 11, less effect of the disease on children than in the overall 145
population. 146
147
For the overall population, the mean serial interval obtained (4.97 days, 95% CI: 3.88-148
6.36) when all studies were considered was shorter than the incubation period (5.61 149
days, 95% CI: 4.74-6.63), supporting the hypothesis of substantial pre-symptomatic 150
transmission of the virus 12. Our own results showed that 29% of disease transmission 151
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7
would be pre-symptomatic. Nevertheless, the results of meta-analysis are sensitive to 152
outliers, and when outliers are removed for this parameter, this theory is not supported. 153
This is due to the fact that Du et al. 13 was identified as an outlier. Outliers always must 154
be taken with caution, for example, Du et al. conducted a study with a large population 155
(468 out of a total of 662 patients from all the 7 studies) and reported a mean serial 156
interval (3.96 days) lower than the other studies. Thus, when outliers were removed, the 157
number of studies was reduced to 5 with a total of 187 patients considered and the mean 158
serial interval increased to 5.80 days (95% CI: 5.69-5.92). In a meta-analysis any 159
Conclusions
that are sensitive to outliers must be stated with caution, while those that 160
are robust to outliers are more reliable. 161
162
Our study has some limitations. First, only papers published in English were evaluated. 163
Although many papers have been published in Chinese and a few in other languages 164
during the period analysed, papers in English provided a large enough sample. Second, 165
we performed the search strategy only with three libraries until 15 April 2020. Our 166
work might not include all the published data with the selected parameters, but given 167
the large amount of papers that was posted daily, and considering that the initial phase 168
of the pandemic lasted until April 2020 in China and other Asian countries 14–16 we took 169
the pragmatic decision to limit the search in this way. Third, data was restricted to Asian 170
countries. We detected a few useful papers from the USA, Italy and Spain, but we 171
decided not include them in the analysis in order to not introduce additional 172
heterogeneity due to cultural (illness is shaped by cultural factors governing perception, 173
labelling, explanation and valuation of the discomforting experience 17) and care 174
pathways differences between Eastern and Western countries. Finally, we presented 175
some results based on fewer than 5 studies and results that showed high heterogeneity, 176
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8
all of which also should be interpreted with caution. Outlier analysis were not 177
appropriate for small groups of studies. We only perform a moderated analysis by time 178
period, but considering other characteristics of the studies would also help to identify 179
causes of heterogeneity. Nevertheless, several of the primary studies had incomplete or 180
ambiguous information for some characteristics that could serve as potential moderators 181
of the disease. Thus, we were unable to identify moderators without drastically reducing 182
the number of studies in the meta-analysis. Therefore, we performed our analysis 183
carefully and considering all these difficulties. 184
185
In this paper we summarised more epidemiological parameters than other available 186
multi-parameter reviews on COVID-19 18–24. However, most of them use more studies 187
for most of the parameters than us, mainly due to our language and geographic 188
restrictions, as well as the application of risk of bias analysis and preprints exclusion. 189
Since a mathematical model is as good as the data it uses 25, we believe that the 190
considerations we have applied are essential to obtain the most reliable and accurate 191
Results
available for modeling purposes. 192
193
In summary, we reviewed and gathered the most relevant epidemiological parameters 194
obtained during early phase of COVID-19 pandemic to date in a single article. 195
Improvement of our understanding of the dynamics of this infectious disease and 196
evaluation of the effectiveness of the adopted intervention measures at initial stages of 197
pandemic are crucial to successfully cope with COVID-19 until new vaccines (or 198
boosters) or antiviral treatments are implemented. These data may be of interest both to 199
modelers, clinicians, managers, and national and regional policymakers when creating 200
and interpreting the retrospective epidemiological models. Similar studies for different 201
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9
stages of the pandemic in several regions would be highly desirable upon data 202
availability, not only to provide a complete picture of the pandemic, but also to be able 203
to identify differences between healthcare systems and their efficiency on dealing with 204
the COVID-19 pandemic, which could also be useful for future pandemics. 205
206
Methods
207
Following the drafted protocol (freely available in the Open Science Framework 208
repository, https://osf.io/26mvb), we searched PubMed, MedRxiv and BioRxiv for 209
articles and preprints published in English between 1 January and 15 April 2020 with 210
the keywords “COVID-19”, “SARS-CoV-2”, “severe acute respiratory syndrome 211
coronavirus 2”, “2019-nCoV” or “novel coronavirus”, as well as key terms to obtain 212
data about the following parameters (see Supplementary Text S1 for our search strategy 213
and Supplementary Text S2 for definitions and reclassifications): 214
• pre-symptomatic transmission period, 215
• serial interval, 216
• incubation period, 217
• onset of symptoms/illness onset to first medical visit, 218
• from first medical visit to diagnosis 219
• from first medical visit hospital admission 220
• onset of symptoms/illness onset to diagnosis, 221
• onset of symptoms/illness onset to hospital admission, 222
• onset of symptoms/illness onset to ICU (Intensive Care Unit) admission, 223
• hospital stay length, 224
• ICU stay length, 225
• hospital admission to death, 226
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• hospital admission to discharge, 227
• onset of symptoms/illness onset to death, 228
• onset of symptoms/illness onset to discharge/recovery, 229
• percentage of pre-symptomatic transmissions, 230
• percentage of asymptomatic patients, 231
• percentage of ICU admissions, 232
• percentage of deaths, 233
• percentage of deaths from ICU, 234
• percentage of discharged, 235
• percentage of discharged from ICU, 236
• percentage in hospital, 237
• percentage in hospital from ICU, 238
• percentage transferred from ICU to general hospital wards. 239
240
Preliminary screening by title and abstract identified potential relevant studies. 241
Subsequently, the full texts of those studies were evaluated and their reference lists 242
examined for additional records (Figure 1). Data related to these epidemiological 243
parameters, such as sample size, mean, standard deviation (SD), confidence intervals, 244
median, interquartile range (IQR) and the fitted distribution used in its estimation, when 245
applicable, as well as sociodemographic information (i.e. patient’s age, gender and 246
location) and the period time of the studies, were extracted in Supplementary Table S1. 247
Reviews, non-original research papers and articles not based on Asian studies were 248
excluded. In case of data overlap, the article with the largest sample size was chosen. 249
Finally, papers that remain as preprints as of 15 November 2021 were also removed 250
from the analysis (the corresponding authors were contacted by e-mail for 251
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11
confirmation). In addition, because COVID-19 does not seem to affect children and 252
teens in the same way as adults 11, we analysed the data for pediatric patients separately. 253
Initial screening was performed by the author ESF, followed by an ultimate extraction 254
of data assessed independently by the authors ESF, DGG and MIV. When discrepancies 255
were detected, MIV and ESF, experienced researchers, made the final decision whether 256
or not to include the study. 257
258
Critical appraisal of selected studies was conducted following the assessment tool 259
developed by Murad et al. 26, which was based on four domains: selection, 260
ascertainment, causality, and reporting. The results from this tool provided a quality 261
assessment of the studies for quantitative synthesis. Articles with unacceptable risk of 262
bias (unclear or high risk of bias in ≥ 1 domain) were excluded from the analysis. Risk 263
of bias was summarised in Supplementary Table S2. 264
265
For each parameter, in order to integrate all the reviewed information from studies with 266
a low/acceptable risk of bias in one overall estimate that could be introduced in 267
mathematical models, we performed different analyses. First of all, taking into account 268
that in Asia the way to deal with the virus changed over time as they gained experience 269
and that on February 12, 2020, WHO convened a Global Research and Innovation 270
Forum on COVID-19 where 300 experts from 48 countries attended 27, we classified the 271
studies considered in this review between those which cases were reported before 272
February 12, 2020 (period A) and, given the impossibility of finding studies only with 273
cases recorded after that date, those who include cases throughout the whole study 274
period (period B). Subsequently, we performed a meta-regression for all the parameters 275
with five or more studies considering the period as a categorical moderator, allowing the 276
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amount of residual heterogeneity to be different in each subset. Afterwards, we carried 277
out the meta-analysis for all included studies and for the two subsets separately when 278
they were confirmed to significantly affect the results, as following: for those 279
parameters including mean and SD, or median and IQR, we conducted a meta-analysis 280
of single means (when mean and SD were not reported, they were estimated from 281
median and IQR 28,29), and when parameters were presented as percentages, a meta-282
analysis of proportions was performed. To account for the variability between and 283
within studies, random-effects models were used. We considered model fitting by both 284
the method of moments 30 and the Restricted Maximum Likelihood Method (REML)31. 285
The natural logarithm transformation was applied to meet the normality assumption 286
underlying the meta-analysis. The null hypothesis of no variance among studies (τ 2=0) 287
was tested using the Q-statistic and the degree of heterogeneity was quantified by the I2 288
index 32. Given the high heterogeneity among studies for most parameters considered, 289
outliers and influencers diagnoses were also performed 33. Thus, we avoided biasing the 290
Conclusions
from the meta-analysis by a few (potentially unusual) studies. Data were 291
analysed using the statistical software R version 3.6.2 34 and the “meta” 35, “metafor” 36 292
and “dmetar” 37 packages. 293
294
The PRISMA-ScR (Preferred Reporting Items for Systematic Reviews and Meta-295
analyses extension for Scoping Reviews) checklist was used to endorse good reporting 296
in this article (see Supplementary PRISMA ScR Checklist) 38. 297
298
Data availability 299
The data used to support the findings of this study are included in Supplementary table 300
S1. 301
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302
Code availability 303
The meta-analysis has been conducted in R version 3.6.2 34. Core packages for 304
replicating the results are publicly available and include and include “meta” 35, 305
“metafor” 36 and “dmetar” 37. 306
. 307
308
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Acknowledgements
402
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is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. (which was not certified by peer review)
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17
We acknowledge Parques Nacionales (Ministerio para la Transición Ecológica y Reto 403
Demográfico, Spain), and Generalitat Valenciana (Regional Government of Valencia, 404
Spain) for the support of the Montgó-Dénia Research Station. We also thank John Y. 405
Dobson and Elena Fonfría for their valuable comments during the editing process. 406
407
Author Contributions 408
CB, ZH and MN: conceptualization. ESF and MIV: Study design, data analysis and 409
Results
interpretation. ESF, MIV and DGG: literature review and data curation. ESF and 410
MIV: writing-original draft preparation. CB: funding acquisition and project 411
administration. All authors contributed to the manuscript writing-review and editing, 412
and approved the submitted version. 413
414
Funding 415
This work was supported by the University of Alicante [grant number COVID-19 2020-416
41.30.6P.0016] and the Conselleria de Agricultura, Desarrollo Rural, Emergencia 417
Climática y Transición Ecológica de Generalitat Valenciana, Ajuntament de Dénia and 418
University of Alicante through the Montgó-Dénia-UA Research Station Agreement 419
[grant number 20202-41.30.6O.00.01]. 420
421
Competing interests 422
The authors declare no competing interests. 423
424
Figures 425
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The copyright holder for this preprint this version posted October 25, 2022. ; https://doi.org/10.1101/2022.10.23.22281408doi: medRxiv preprint
18
426
Fig. 1. PRISMA flow diagram. Abbreviations: SD, Standard deviation; CI, Confidence 427
Intervals; IQR, Interquartile range. 428
429
Tables 430
Table 1. Meta-analysis results for parameters where period is not a significant 431
moderator. 432
Parameter
All studies included Outliers
removed
Mean 95% CI Studies
included
N
(patients)
I2
(%) Mean I2
(%)
General Population
Serial interval (days) 4.97 3.88-6.36 7 662 91 5.80 18
Incubation period (days) 5.61 4.74-6.63 16 2437 96 5.30 52
OS to hospital admission (all)(days) 6.29 5.32-7.44 27 4323 98 6.51 12
OS to hospital admission (non-survivor)
(days) 10.15 9.61-10.71 7 574 56 10.18 47
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is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. (which was not certified by peer review)
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19
OS to hospital ICU admission (all) (days) 9.74 9.20-10.31 6 187 0 ND ND
Hospital stay length (non-survivor) (days) 8.63 7.23-10.31 12 785 93 8.12 0
ICU stay length (survivor)(days) 9.08† 6.47-12.76 4 212 92 NA NA
OS to death (days) 17.79 16.06-19.71 10 516 86 16.66 57
OS to discharge (days) 21.76† 18.13-26.12 3 362 98 NA NA
Pre-symptomatic transmission (%) 29.33 11.29-57.50 5 870 97 ND ND
Asymptomatic patients (%) 8.54 4.04-17.18 14 2430 90 5.44 18
ICU admissions vs all hospital admissions (%) 13.09 9.14-18.41 19 4994 94 16.75 40
Deaths vs all hospitalized patients (%) 7.62 4.59-12.41 20 5771 94 13.23 41
Deaths from ICU (%) 35.03 19.42-54.67 5 453 79 38.30† 0
Discharged vs all hospitalized patients (%) 49.34 36.01-62.76 25 4840 97 34.93 0
Discharged from ICU (%) 44.96 25.73-65.82 6 487 85 54.61† 2
In hospital (%) 59.79 47.01-71.36 21 3902 97 63.13 21
In hospital (ICU) (%) 16.63 8.53-29.91 7 537 86 16.30 57
Children (<18years)
Incubation period (days) 6.69† 5.49-8.15 4 25 0 NA NA
OS to diagnosis (days) 3.27† 1.35-7.92 3 744 92 NA NA
Hospital stay length (days) 12.77† 8.51-19.17 3 52 90 NA NA
Asymptomatic patients (%) 16.66† 11.52-23.48 4 945 56 NA NA
ICU admissions vs all hospital admissions (%) 5.06† 1.64-14.60 4 211 42 NA NA
Discharged vs all hospitalized patients (%) 19.39† 3.39-62.23 3 205 86 NA NA
In hospital (%) 80.27† 37.87-96.45 3 205 86 NA NA
Abbreviations: CI, Confidence Intervals; ICU, Intensive Care Unit; NA, Not Applicable; ND, Not 433
Detected; OS, Onset of symptoms. 434
† Results are based on fewer than 5 studies. 435
436
Table 2. Meta-analysis results for parameters where period is a significant moderator. 437
Parameter Period
All studies included Outliers
removed
Mean 95% CI Studies
included
N
(patients)
I2
(%) Mean I2
(%)
General Population
OS to hospital admission
(survivor)(days)
A 9.81† 8.32-11.57 2 298 91 NA NA
B 6.14† 4.38-8.59 4 250 97 NA NA
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20
Hospital stay length (all) (days)
A 12.70 11.58-13.94 7 1959 96 13.13† 0
B 17.14 13.42-21.88 6 777 97 19.70† 0
Hospital stay length (survivor)
(days)
A 11.06† 10.26-11.91 4 392 59 NA NA
B 16.38 14.34-18.70 11 835 99 14.88 72
ICU stay length (non-survivor)
(days)
A 8.36† 7.19-9.71 4 270 41 NA NA
B 11.80† 9.61-14.48 1 51 NA NA NA
Abbreviations: CI, Confidence Intervals; ICU, Intensive Care Unit; NA, Not Applicable. Periods: A, 438
includes cases before Feb 12, 2020; B, includes cases before and after Feb 12, 2020. 439
† Results are based on fewer than 5 studies 440
441
442
443
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is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. (which was not certified by peer review)
The copyright holder for this preprint this version posted October 25, 2022. ; https://doi.org/10.1101/2022.10.23.22281408doi: medRxiv preprint
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