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STEM Avian Influenza Model

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Several outbreaks of avian influenza have occurred in the past, including the SARS outbreak in 2002, H5N1 in 1997 and H7N9 in 2013 -- all originating in China. This STEM model captures the transmission of the virus between (domesticated) birds, from birds to humans (e.g. at market places) and optionally human-to-human. Mixing of infectious birds between neighboring regions is controlled using a separate parameter from the human mixing parameter.


The model is uses an SIR model for humans as well as birds, as well as an indirect transmission pathway between infected birds and susceptible humans:

STEM AvianFluModel.JPG

Below are the differential equations that explain the model:

STEM AvianFluModel Diff Eq.JPG

When the model contains temperature earth science data, a seasonal effect in transmission is included in the mass action term. You can download an example STEM scenario of an Avian Influenza outbreak here: [1]

These are the parameters:

Avian Characteristic Mixing Distance. Controls mixing of infected birds across neighboring regions. Higher values means more mixing

Avian Recovery Rate. λa Rate of recovery for infected birds (1/time period)

Avian to Avian Transmission Rate. βa Transmission rate between birds

Avian to Human Transmission Rate. βah Transmission rate between birds and humans

Characteristic Mixing Distance. Mixing of infected humans across neighboring regions. Higher values mean more mixing

Human Immunity Loss Rate. λ Immunity loss rate for humans (1/time period)

Human Recovery Rate. α Human recovery rate (1/time period)

Human to Human Transmission Rate. β Transmission rate between humans

Temperature Factor. The factor controlling linear scaling of the transmission with temperature

Vector Population Identifier. The population identifier for the avian population

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