OxRML/AgentSLR huggingface dataset:
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Risk factors
Timing of estimate: Post outbreak
Risk factor: Age;Other
Risk factor outcome: Other
Risk factor significant: Significant
Risk factor adjusted: Adjusted
Other risk factor outcome: RNA persistence
Population group: Persons under investigation (Other)
Population sex: Male
Population age range: 18 - 66
Sample size: 220
Country: Sierra Leone
Location: Freetown, Western Area District, Port Loko District
Study period: May 2015 - Apr 2017
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Risk factors
Timing of estimate: Post outbreak
Risk factor: Other
Risk factor outcome: Other
Risk factor significant: Not significant
Risk factor adjusted: Adjusted
Other risk factor outcome: RNA persistence
Population group: Persons under investigation (Other)
Population sex: Male
Population age range: 18 - 66
Sample size: 220
Country: Sierra Leone
Location: Freetown, Western Area District, Port Loko District
Study period: May 2015 - Apr 2017
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Attack rate
Value:  Percentage (%)
Timing of estimate: Mid outbreak
Disaggregated by: Time
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Sample size: 101
Country: Sierra Leone
Location: Kailahun
Study period: 2014
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Reproduction number (Effective, Re)
Value:  No units
Estimation method: Genomics
Timing of estimate: Mid outbreak
Disaggregated by: Time
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Sample size: 101
Country: Sierra Leone
Location: Kailahun
Study period: 2014
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Basic R0)
Value:  No units
Value type: Mean
Range: 1.1 - 1.21
Estimation method: Compartmental model
Timing of estimate: Unspecified
Disaggregated by: Time
Population group: Unspecified (Unspecified)
Population sex: Both
Sample size: 3080
Country: DRC
Location: Northern Kivu, Southern Kivu, Ituri
Study period: 3 May 2018 - 12 Sep 2019
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Effective, Re)
Value:  No units
Value type: Mean
Estimation method: Other
Timing of estimate: Unspecified
Disaggregated by: Time
Population group: Unspecified (Unspecified)
Population sex: Both
Sample size: 3080
Country: DRC
Location: Northern Kivu, Southern Kivu, Ituri
Study period: 3 May 2018 - 12 Sep 2019
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Human delay - infectious period  (inverse parameter)
Value:  Days
Value type: Mean
Range: 0.17 - 0.21
Timing of estimate: Unspecified
Disaggregated by: Time
Delay type: Infectious period
Population group: Unspecified (Unspecified)
Population sex: Both
Sample size: 3080
Country: DRC
Location: Northern Kivu, Southern Kivu, Ituri
Study period: 3 May 2018 - 12 Sep 2019
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Zaire Ebola virus (EBOV)
Outbreak: Unspecified
Parameter: Mutations – substitution rate
Value: 1.4 Substitutions/site/year
Value type: Mean
Uncertainty: 0.473 - 2.45 (95% CrI)
Combined uncertainty: 0.473 - 2.45 (95% CrI)
Timing of estimate: Unspecified
Genome site: Whole genome
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: DRC
Study period: Unspecified
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Zaire Ebola virus (EBOV)
Outbreak: Unspecified
Parameter: Mutations – substitution rate
Value: 2.16 Substitutions/site/year
Value type: Mean
Uncertainty: 0.91 - 3.67 (95% CrI)
Combined uncertainty: 0.91 - 3.67 (95% CrI)
Timing of estimate: Unspecified
Genome site: Whole genome
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: DRC
Study period: Unspecified
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Zaire Ebola virus (EBOV)
Outbreak: Unspecified
Parameter: Mutations - evolutionary rate
Value:  Substitutions/site/year
Timing of estimate: Unspecified
Disaggregated by: Other
Genome site: Whole genome
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: DRC
Study period: Unspecified
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Basic R0)
Value:  No units
Estimation method: Branching process
Timing of estimate: Mid outbreak
Disaggregated by: Other, Region
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Sample size: 1273
Country: DRC
Study period: 8 May 2018 - 15 Apr 2019
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Effective, Re)
Value: 1.11 No units
Value type: Mean
Estimation method: Branching process
Timing of estimate: Mid outbreak
Disaggregated by: Other, Region, Time
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Sample size: 1273
Country: DRC
Study period: 8 May 2018 - 15 Apr 2019
Pathogen: Ebola virus
Ebola species: Unspecified
Ebola variant: Unspecified
Outbreak: Unspecified
Parameter: Reproduction number (Basic R0)
Value:  No units
Estimation method: Branching process
Timing of estimate: Unspecified
Disaggregated by: Other
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: DRC, Republic of the Congo, Gabon, Sudan, Uganda
Study period: 1979 - 2014
Pathogen: Ebola virus
Ebola species: Unspecified
Ebola variant: Unspecified
Outbreak: Unspecified
Parameter: Reproduction number (Effective, Re)
Value:  No units
Estimation method: Branching process
Timing of estimate: Unspecified
Disaggregated by: Other, Time
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: DRC, Republic of the Congo, Gabon, Sudan, Uganda
Study period: 1979 - 2014
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Reproduction number (Basic R0)
Value: 1.95 No units
Value type: Unspecified
Estimation method: Compartmental model
Timing of estimate: Unspecified
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Liberia
Study period: 2 Jun 2014 - 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Index Case Diagnosis to Vaccination of Contacts
Value: 15 Days
Value type: Median
Uncertainty: 4 - 22 (Range)
Combined uncertainty: 4 - 22 (Range)
Timing of estimate: Mid outbreak
Delay type: Index case diagnosis to vaccination of contacts
Other delay: Index Case Diagnosis to Vaccination of Contacts (Index Case Diagnosis to Vaccination of Contacts)
Population group: Persons under investigation (Hospital based)
Population sex: Both
Population age range: 18 - 70
Sample size: 210
Country: Liberia
Location: Monrovia
Study period: 19 Nov 2015 - 11 Dec 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Effective, Re)
Value: 2.49 No units
Value type: Unspecified
Estimation method: Next generation matrix
Population group: General population (Population based)
Population sex: Unspecified
Country: DRC
Location: Kivu
Study period: 5 Aug 2018 - 27 Jul 2019
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Reproduction number (Basic R0)
Value: 1.9 No units
Value type: Unspecified
Estimation method: Other
Timing of estimate: Unspecified
Population group: Persons under investigation (Hospital based)
Country: Sierra Leone
Study period: 19 May 2014 - 11 Jan 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Severity - case fatality rate (CFR)
Value: 51.41 Percentage (%)
Value type: Unspecified
Uncertainty: 12.19 - 106.91 (95% CI)
Combined uncertainty: 12.19 - 106.91 (95% CI)
Timing of estimate: Unspecified
Population group: Persons under investigation (Hospital based)
Country: Sierra Leone
Study period: 19 May 2014 - 11 Jan 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Suspected to Death
Value: 4.88 Days
Value type: Mean
Uncertainty: 0.04 - 1.01 (95% CI)
Combined uncertainty: 0.04 - 1.01 (95% CI)
Timing of estimate: Unspecified
Delay type: Suspected to death
Other delay: Suspected to Death (Suspected to Death)
Population group: Persons under investigation (Hospital based)
Country: Sierra Leone
Study period: 19 May 2014 - 11 Jan 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Death
Value: 1.2 Days
Value type: Mean
Uncertainty: 0.11 - 1.19 (95% CI)
Combined uncertainty: 0.11 - 1.19 (95% CI)
Timing of estimate: Unspecified
Delay type: Admission to care to death
Other delay: Admission to Care/Hospitalisation to Death (Admission to Care/Hospitalisation to Death)
Population group: Persons under investigation (Hospital based)
Country: Sierra Leone
Study period: 19 May 2014 - 11 Jan 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Recovery/non-Infectiousness
Value: 2.56 Days
Value type: Unspecified
Uncertainty: 0.08 - 1.15 (95% CI)
Combined uncertainty: 0.08 - 1.15 (95% CI)
Timing of estimate: Unspecified
Delay type: Admission to care to recovery/non-infectiousness
Other delay: Admission to Care/Hospitalisation to Recovery/non-Infectiousness (Admission to Care/Hospitalisation to Recovery/non-Infectiousness)
Population group: Persons under investigation (Hospital based)
Country: Sierra Leone
Study period: 19 May 2014 - 11 Jan 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Basic R0)
Value: 7.73 No units
Value type: Unspecified
Estimation method: Next generation matrix
Timing of estimate: Unspecified
Population group: General population (Population based)
Population sex: Both
Country: DRC
Study period: 5 Aug 2018 - 20 Oct 2019
Pathogen: Ebola virus
Ebola species: Unspecified
Ebola variant: Unspecified
Outbreak: Multiple outbreaks
Parameter: Reproduction number (Basic R0)
Value:  No units
Value type: Unspecified
Range: 1.53 - 266.72
Estimation method: Compartmental model
Timing of estimate: Unspecified
Disaggregated by: Region, Time
Population group: General population (Population based)
Population sex: Unspecified
Sample size: 315
Country: DRC, Guinea, Liberia, Sierra Leone
Location: Kitwit, Bandundu
Study period: 1995 - 2016
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Death  (inverse parameter)
Value: 0.42 No units
Value type: Unspecified
Delay type: Admission to care to death
Other delay: Admission to Care/Hospitalisation to Death (Admission to Care/Hospitalisation to Death)
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Sierra Leone
Study period: 14 Mar 2014 - Apr 2016
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Recovery/non-Infectiousness  (inverse parameter)
Value: 0.29 No units
Value type: Unspecified
Delay type: Admission to care to recovery/non-infectiousness
Other delay: Admission to Care/Hospitalisation to Recovery/non-Infectiousness (Admission to Care/Hospitalisation to Recovery/non-Infectiousness)
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Sierra Leone
Study period: 14 Mar 2014 - Apr 2016
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Death  (inverse parameter)
Value: 0.26 No units
Value type: Unspecified
Delay type: Admission to care to death
Other delay: Admission to Care/Hospitalisation to Death (Admission to Care/Hospitalisation to Death)
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Liberia
Study period: 14 Mar 2014 - Apr 2016
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Human delay - Admission to Care/Hospitalisation to Recovery/non-Infectiousness  (inverse parameter)
Value: 0.2 No units
Value type: Unspecified
Delay type: Admission to care to recovery/non-infectiousness
Other delay: Admission to Care/Hospitalisation to Recovery/non-Infectiousness (Admission to Care/Hospitalisation to Recovery/non-Infectiousness)
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Liberia
Study period: 14 Mar 2014 - Apr 2016
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 2018-2020
Parameter: Reproduction number (Effective, Re)
Value: 0.33 
Value type: Unspecified
Estimation method: Compartmental model
Population group: General population (Population based)
Country: DRC
Location: Kivu
Study period: 2018 - 2020
Pathogen: Ebola virus
Ebola species: Unspecified
Ebola variant: Unspecified
Outbreak: Multiple outbreaks
Parameter: Reproduction number (Effective, Re)
Estimation method: Empirical (contact tracing)
Timing of estimate: Unspecified
Disaggregated by: Other
Population group: Persons under investigation (Unspecified)
Population sex: Unspecified
Country: Multi-country: Africa (n = 6)
Location: Congo, Guinea, Liberia, Nigeria, Sierra Leone, Uganda
Study period: 2000 - 2015
Pathogen: Ebola virus
Ebola species: Unspecified
Ebola variant: Unspecified
Outbreak: Multiple outbreaks
Parameter: Overdispersion
Value: 0.24 No units
Value type: Median
Range: 0.24 - 2.09
Uncertainty (single): 0.06 (Standard Error)
Combined uncertainty: 0.06 (Standard Error)
Estimation method: Empirical (contact tracing)
Timing of estimate: Unspecified
Disaggregated by: Other
Population group: Persons under investigation (Unspecified)
Population sex: Unspecified
Country: Multi-country: Africa (n = 6)
Location: Congo, Guinea, Liberia, Nigeria, Sierra Leone, Uganda
Study period: 2000 - 2015
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 1995
Parameter: Human delay - latent period  (inverse parameter)
Value:  Days
Value type: Mean
Range: 0.11 - 0.12
Timing of estimate: Unspecified
Disaggregated by: Other
Delay type: Latent period
Population group: General population (Population based)
Population sex: Unspecified
Sample size: 291
Country: DRC
Study period: Mar 1995 - Jul 1995
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: DRC, 1995
Parameter: Reproduction number (Basic R0)
Value:  No units
Value type: Mean
Range: 1.5 - 2.08
Estimation method: Compartmental model
Timing of estimate: Unspecified
Disaggregated by: Other
Population group: General population (Population based)
Population sex: Unspecified
Sample size: 291
Country: DRC
Study period: Mar 1995 - Jul 1995
Pathogen: Ebola virus
Ebola species: Zaire
Ebola variant: Unspecified
Outbreak: West Africa 2013-2016
Parameter: Overdispersion
Value: 0.065 No units
Value type: Mean
Uncertainty: 0.037 - 0.11 (HPDI 95%)
Combined uncertainty: 0.037 - 0.11 (HPDI 95%)
Estimation method: Branching process
Timing of estimate: Unspecified
Disaggregated by: Time
Population group: Unspecified (Unspecified)
Population sex: Unspecified
Country: Sierra Leone
Location: Freetown
Study period: 4 Aug 2014 - 29 Mar 2015