hlt012-sample / pathogen_profiles.json
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{
"SARS-CoV-2": {
"R0_base": 2.5,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Influenza-A": {
"R0_base": 1.4,
"R0_sigma": 0.2,
"serial_interval_mean": 3.0,
"serial_interval_sd": 1.3,
"incubation_mean": 1.9,
"incubation_sigma": 0.8,
"infectious_period_mean": 5.0,
"infectious_period_sd": 1.5,
"symptomatic_fraction": 0.7,
"CFR_base": 0.001,
"household_SAR": 0.15,
"IFR_by_age": {
"0-4": 8e-05,
"5-17": 3e-05,
"18-49": 0.00012,
"50-64": 0.0006,
"65-74": 0.003,
"75+": 0.012
},
"hosp_rate_by_age": {
"0-4": 0.012,
"5-17": 0.004,
"18-49": 0.008,
"50-64": 0.022,
"65-74": 0.058,
"75+": 0.095
}
},
"Measles": {
"R0_base": 15.0,
"R0_sigma": 1.5,
"serial_interval_mean": 11.0,
"serial_interval_sd": 2.5,
"incubation_mean": 10.0,
"incubation_sigma": 2.0,
"infectious_period_mean": 8.0,
"infectious_period_sd": 2.0,
"symptomatic_fraction": 0.95,
"CFR_base": 0.002,
"household_SAR": 0.75,
"IFR_by_age": {
"0-4": 0.003,
"5-17": 0.0005,
"18-49": 0.0008,
"50-64": 0.001,
"65-74": 0.003,
"75+": 0.006
},
"hosp_rate_by_age": {
"0-4": 0.045,
"5-17": 0.012,
"18-49": 0.02,
"50-64": 0.03,
"65-74": 0.048,
"75+": 0.072
}
},
"Ebola": {
"R0_base": 8.159439597431042,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"MERS": {
"R0_base": 10.195663189076475,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Mpox": {
"R0_base": 1.9014712996275112,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Plague": {
"R0_base": 9.53291081211823,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Cholera": {
"R0_base": 3.1919039913046627,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"RSV": {
"R0_base": 9.463250101963531,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Influenza-B": {
"R0_base": 11.545143710320792,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Novel-Pathogen": {
"R0_base": 8.662060519756743,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
},
"Smallpox": {
"R0_base": 7.297228180177827,
"R0_sigma": 0.3,
"serial_interval_mean": 5.1,
"serial_interval_sd": 2.6,
"incubation_mean": 5.2,
"incubation_sigma": 1.4,
"infectious_period_mean": 9.0,
"infectious_period_sd": 3.0,
"symptomatic_fraction": 0.6,
"CFR_base": 0.015,
"household_SAR": 0.35,
"IFR_by_age": {
"0-4": 3e-05,
"5-17": 5e-05,
"18-49": 0.0006,
"50-64": 0.0035,
"65-74": 0.013,
"75+": 0.054
},
"hosp_rate_by_age": {
"0-4": 0.005,
"5-17": 0.002,
"18-49": 0.015,
"50-64": 0.045,
"65-74": 0.085,
"75+": 0.13
}
}
}