ISU FLUture

Influenza PCR positive submissions per year

(Last Record from )

ISU FLUture is an interactive web-based tool developed to provide diagnostic information from an Influenza A Virus database of test results, metadata, and sequences collected at the Iowa State University Veterinary Diagnostic Laboratory. The goal of ISU FLUture is to allow veterinarians, swine producers, and researchers to seek out and find trends in the data that will allow them to make informed decisions regarding influenza and swine health. ISU FLUture data is derived from diagnostic samples submitted from a diverse array of swine farms and production systems around the United States and North America. The metadata used at ISU FLUture is dependent on submitters supplying accurate and thorough information provided on submission forms with diagnostic samples to the Iowa State University Veterinary Diagnostic Laboratory.

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Suite of Tools

Correlations
Over 100 unique correlation graphs can be generated to search for trends from variables stored in the database.
Time Series
The incidence of the variables in the database can be viewed over a period of time
Regional
The incidence of flu positive cases that have been processed by the USDA/ISU-VDL can be viewed by geographic location, over a specified period of time.
Heat Map
Demonstrates the distribution of the hemagglutinin and neuraminidase subtype combinations over a period of time.

Variables

The ISU FLUture database curates information related to the individual swine cases. An explanation of each of the variables that ISU FLUture allows searching for can be found below.

Age
The age of the pig at the time the flu positive sample was taken.
Day
The day of the year that the flu positive sample was taken.
HA Clade
The phylogenetic clade that a flu positive sample is part of, based on the hemagglutinin sequence. Currently the ISU FLUture database tracks only H1 and H3 subtype hemagglutinin, thus clades will be derived from one of these subtypes.
HA Sequence
The genetic sequence of the hemagglutinin of a specific influenza virus case. Sequencing is only attempted for sample with cycle threshold (CT) values less then or equal to 38.
Month
The month of the year that the flu positive sample was taken.
NA Clade
The phylogenetic clade that a flu positive sample is part of, based on neuraminidase. Currently the ISU FLUture database tracks only N1 and N2 subtype neuraminidase, thus clades will be derived from one of these subtypes. Only samples with cycle threshold (CT) values less then or equal to 25 are sequenced, and are applicable for this type of data.
PCR Specimen
The specimen from which the subtyping RT-PCR was derived from.
Sequence Specimen
The specimen that was used for attempting sequencing.
Site State
The state that the pig was located in when the sample was taken for submission to the veterinary diagnostic laboratory.
Subtype
The subtype of the influenza virus, based on PCR identificatin of the hemagglutinin and neuraminidase proteins.
Testing Facility
The stream that handeled the sequencing of the sample. Samples with cycle threshold (CT) values less then or equal to 25 are handled by the USDA stream, while samples with CT values less then or equal to 38 are processed by the ISU VDL stream. Samples with CT values above 38 are not sequenced.
Week
The week of the year that the flu positive sample was taken.
Year
The year that the flu positive sample was taken.