# HG changeset patch
# User Flávio Codeço Coelho
# Date 1340383510 10800
# Node ID 3ebfde23330805d335777b85083c47f8a75ec42e
# Parent b724e3289dca9f43d72a9276decc09969d7b8010
added dengue epidemiology ontology and new classes to Epidemic modeling
diff git a/EpidemicModeling/DengueEpidemiology.owl b/EpidemicModeling/DengueEpidemiology.owl
new file mode 100644
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+++ b/EpidemicModeling/DengueEpidemiology.owl
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+ https://bitbucket.org/fccoelho/mathmodelontology/raw/tip/EpidemicModeling/EpidemicModeling.owl
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+ #Aedes_aegypti
+ Aedes aegypti is a mosquito that can spread the dengue fever, Chikungunya and yellow fever viruses, and other diseases. It belongs to the tribe Aedini of the dipteran family Culicidae and to the genus Aedes and subgenus Stegomyia.
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+ #Aedes_albopictus
+ Aedes albopictus is an epidemiologically important vector for the transmission of many viral pathogens, including the West Nile virus, Yellow fever virus, St. Louis encephalitis, dengue fever, and Chikungunya fever, as well as several filarial nematodes such as Dirofilaria immitis.Like the Aedes aegypti, it belongs to the subgenus Stegomyia
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+ #DHF
+ In a small proportion of cases dengue infection develops into the lifethreatening dengue hemorrhagic fever, resulting in bleeding, low levels of blood platelets and blood plasma leakage, or into dengue shock syndrome, where dangerously low blood pressure occurs.
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+ #Dengue_fever
+ Dengue fever, also known as breakbone fever, is an infectious tropical disease caused by the dengue virus. Symptoms include fever, headache, muscle and joint pains, and a characteristic skin rash that is similar to measles.
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diff git a/EpidemicModeling/EpidemicModeling.owl b/EpidemicModeling/EpidemicModeling.owl
 a/EpidemicModeling/EpidemicModeling.owl
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https://bitbucket.org/fccoelho/mathmodelontology/raw/2973f8304c08/Modeling%20Ontology/MathModels.owl
+
+ Flávio Codeço Coelho
+
+
Ontology of Mathematical Epidemic Models
 Flávio Codeço Coelho
+ Renato Rocha Souza
Cláudia Torres Codeço

 Renato Rocha Souza


english
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@@ 935,21 +1612,6 @@
 https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Life_History_Transition_Rate
 Life_History_Transition_Rates



 https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Life_History_Transition_Rate
 Life_History_Transition_Rate



 https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Life_History_Transition_Rate
 Transition rates between immunological or developmental states.



https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Life_expectancy
Life_expectancies
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 https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Mass_action
 Mass_actions



 https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Mass_action
 Mass_action



https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Mathematical_Epidemiology
Mathematical_Epidemiologies
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https://bitbucket.org/fccoelho/mathmodelontology/raw/795d675c89cd/EpidemicModeling/EpidemicModeling.owl#Transmission_rate
 the effective contact rate between susceptible and infected
+ the number of new infections per unit time. If variables representing host classes are densities per unit area, the transmission rate will likewise be the number of new infections per unit area, per unit time.
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Zhang_C
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+ #Biological_control
+ Vector control strategy involving the introduction of predators, competitors or parasites to affect the vectorial capacity of the target population
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+ #Chemical_control
+ Vector control strategy involving chemicals to reduce the vector population
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+ #Contact_rate
+ the number of potentially infectious contacts made per infected host per unit time. A potentially infectious contact is one that is capable of resulting in infection if contact is with a susceptible.
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+ #Density_dependent_transmission_function
+ transmission in which the number of new infections per unit time is proportional to the product of the density of infected hosts I and the density of susceptible hosts S. Synonymous with mass action.
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+ #Environmental_control
+ Public Health interventions targeting the environmentally associated components of the transmission process
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+ #Extrinsic_incubation_period
+ Extrinsic incubation period: In a vector, it is the time between entrance of an organism into the vector and the time when that vector can transmit the infection.
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+ #Frequency_dependent_transmission_function
+ transmission in which the number of new infections per unit time is proportional to the product of the density of infected hosts (I ) and the proportion (or frequency) of hosts that are susceptible (S/N).
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+ #Frequency_dependent_transmission_function
+ TRENDS in Ecology & Evolution Vol.16 No.6 June 2001
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+ #Homogeneous_mixing
+ Homogeneous mixing of the population, i.e., individuals of the population under scrutiny assort and make contact at random and do not mix mostly in a smaller subgroup.
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+ #Host_demography_concepts
+ Parameters associated with the demographic dynamics of the population: reproduction, death not associated with the disease, aging, migration, travel
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+ #Immunological_state_duration
+ Duration of the Immunological states
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+ #Immunological_state_transition_concepts
+ Rate of transition between immunological states
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+ #Intervention
+ Public health actions to reduce risk of disease transmission
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+ #Nonhomogeneous_mixing
+ NonHomogeneous mixing of the population, i.e., individuals DO NOT assort and make contact at random. They mix mostly in smaller subgroups. Structured population.
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+ #Quarantine
+ Quarantine is compulsory isolation, typically to contain the spread of something considered dangerous, often but not always disease.
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#SEI
The SEI model takes into consideration the exposed or latent period of the disease, giving an additional compartment to the SI model, E(t). In this model there is no recovery.
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#Susceptible_Infected
SI
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+ #Vaccination
+ Vaccination is the administration of antigenic material (a vaccine) to stimulate the immune system of an individual to develop adaptive immunity to a disease.
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+ #Vector_competence
+ The physiological ability of a vector organism to acquire, maintain and transmit an infectious agent, as described by susceptibility to a pathogen, immune response, and sustaining infection long enough for disease transmission to occur.
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+ #Vector_control
+ Intervention strategies targeting to reduce the vectorial capacity of the disease vector
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+ #Vectorial_capacity
+ In vector borne diseases, the vectorial capacity is the daily rate at which future inoculations arise from a currently infective case
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+ #adulticide
+ An adulticide is an insecticide that is specifically targeted against the mature life stage of an insect.
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+ #larvicide
+ A larvicide (alternatively larvacide) is an insecticide that is specifically targeted against the larval life stage of an insect.
+

+
diff git a/EpidemicModeling/catalogv001.xml b/EpidemicModeling/catalogv001.xml
 a/EpidemicModeling/catalogv001.xml
+++ b/EpidemicModeling/catalogv001.xml
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+


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