vectorbase invertebrate vectors of human pathogens

VectorBaseInvertebrate Vectors of Human Pathogens

Lots of data out there…Data on: Distribution of vectors and their ecology Insecticide resistance Transmission capacity

For diseases:Malaria, Chagas, Dengue, Lymph. filariasis, etc.

Projects funded by: Innovative Vector Control Consortium - IVCC The WHO/Gates Foundation Vector Biology and Control Project - VBC African Network on Vector Research - ANVR Marathon Oil (and other private investors) And several more, including national programmes

Problems:Fragmentation of data; Secrecy; Independence; “Dialects” and syntax; etc.

Intelligent Databases

Open access

Intelligent Databases

Open access

The answer, is...

InteroperabilityInteroperability Efficient searchesEfficient searches

Decision Support SystemsDecision Support Systems

3610 (2392 unique)3610 (2392 unique)

IRBase

The example of Insecticide Resistance:

Aedes aegypti, 2098 records

The example of Insecticide Resistance:

Aedes aegypti, 2098 records

The example of Insecticide Resistance:

Aedes aegypti - DDT, 133 records

The example of Insecticide Resistance:

Anopheles gambiae, 771 records

The example of Insecticide Resistance:

A. gambiae - DDT, 198 records

The example of Insecticide Resistance:

A. gambiae - permethrin, 190 records

OBI/MIRO: assay MIRO: resistance assay

CHEBI: insecticideis_a participates_in

MIRO: Organism

MIRO: resistance

VB_CV: genotype

PATO: Phenotype

VB_CV/MIRO: Mosquito population

GAZ: Geolocation

IDOMAL: Human population

IDOMAL: Transmission

detection assay

IDOMAL:Human biting rate

Sporozoite rateParous rate

Vectorial capacity

ENVO : Environmental conditionse.g.

Rice field,Irrigation scheme,

swamp,altitude,

av. temperature,annual rainfall,

av. humidity

GAZ:Country,Province,District,

GPS coordinates

OBI/MIRO: collection assay

IDOMAL:Season

Season +

Geolocation +

Human population +

Mosq. population

is_ahas_input

has_output is_a

has_output

has_outputis_a

has_input

has_member

has_quality

is_a

has_qualityis_about

located_in

IDOMAL: Malaria control measures

OBI/MIRO: assay MIRO: resistance assay

CHEBI: insecticideis_a participates_in

MIRO: Organism

MIRO: resistance

VB_CV: genotype

PATO: Phenotype

VB_CV/MIRO: Mosquito population

GAZ: Geolocation

IDOMAL: Human population

IDOMAL: Transmission

detection assay

IDOMAL:Human biting rate

Sporozoite rateParous rate

Vectorial capacity

ENVO : Environmental conditionse.g.

Rice field,Irrigation scheme,

swamp,altitude,

av. temperature,annual rainfall,

av. humidity

GAZ:Country,Province,District,

GPS coordinates

OBI/MIRO: collection assay

IDOMAL:Season

Season +

Geolocation +

Human population +

Mosq. population

is_ahas_input

has_output is_a

has_output

has_outputis_a

has_input

has_member

has_quality

is_a

has_qualityis_about

located_in

IDOMAL: Malaria control measures

OBI/"VIRO": assay "VIRO": resistance assay

CHEBI: insecticideis_a participates_in

"VIRO": Organism

"VIRO": resistance

VB_CV: genotype

PATO: Phenotype

VB_CV/"VIRO": Vectorpopulation

GAZ: Geolocation

"VIRO": Human population

"IDOVBD": Transmission

detection assay

"IDOVBD":Transmission data

relating to vectors of other vector-borne

diseases

ENVO : Environmental conditionse.g.

Rice field,Irrigation scheme,

swamp,altitude,

av. temperature,annual rainfall,

av. humidity

GAZ:Country,Province,District,

GPS coordinates

OBI/"VIRO": collection assay

"IDOVBD": Disease control measures

"IDOVBD":Season

Season +

Geolocation +

Human population +

Vector population

is_ahas_input

has_output is_a

has_output

has_outputis_a

has_input

has_member

has_quality

is_a

has_qualityis_about

located_in

“VBDbase”

"IDOVBD":Additional data

models

“Oth_Ont2”:Additional data

models

“Oth_Ont1”:Additional data

models

PopGen in VectorBasePopGen in VectorBase

George Christophides, with Bob MacCallum and Seth Redmont

Kitsos Louis, with Emmanuel Dialynas and Pantelis Topalis

A new section of VB being developed that will house data on the population biology of anophelines, as well as data on malaria transmission and IR.

UO GAZ PATO IDOMAL

VBCV

IDOMAL

IDOMAL

Linking PopGen and ontologies; Phenotypes, IR, transmission and popu- lation/ecology data

Soon to come in VectorBase!

TGMA – Mosquito Anatomy Ontology; CARO/BFO

TADS – Tick Anatomy Ontology; CARO/BFO

MIRO – Ontology of Insecticide Resistance; (move) to IDOMAL

IDOMAL – Malaria Ontology; IDO/BFO

VBCV – Ontology/CV for “completion” of PopGen

IDOMAL extension, “IDOChagas”, PLO (Parasite Lifecycle) with Priti Parykh, Chris Stoeckert et al.

LOGICAL THOUGHT IS NOT A PRIVILEGE OF A FEW

IT’S AN OBLIGATION FOR EVERYONE !!!

Thank you!Thank you!