Evaluation of approaches that adjust for biases in participatory surveillance systems

Because the dynamics and severity of influenza in the US vary each season, yearly estimates of disease burden in the population are essential to evaluate interventions and allocate resources. The CDC uses data from a national health-care based surveillance system and mathematical models to estimate the overall burden of disease in the general population. Over the past decade, crowd-sourced syndromic surveillance systems have emerged as a digital data source that collects health-related information in near real-time.

January 21, 2018

Using R for Disease Surveillance + Enabling Citizen Data Science and Cybersecurity/safety Tips for Scientists

The R programming language has become a critical data science tool for the scientific community but has also helped launch a new era of “citizen data scientists” due to the wealth of packages that make it easy to access rich data sources, perform a wide array of computations and produce striking and informative visualizations. This talk will review the history of the ‘cdcfluview’ package, show how it has been used by researchers and citizens, and provide insight into the rationale that created it.

January 24, 2018

Viral causes of Influenza Like Illness in Uganda, 2008 to 2017.

Respiratory pathogens continue to present an ever increasing threat to public health. Influenza, Respiratory syncytial virus, human metapneumovirus and other respiratory viruses are major etiological agents for influenza like illnesses (ILI). Establishment of viral causes of ILI is critical for prevention and mitigation strategies to disease threats. Makerere University Walter Reed Project (MUWRP) together with the Ugandan Ministry of Health and partners undertook surveillance to determine viral causes of influenza-like illness in Uganda.


January 25, 2018

Using R Shiny to Share Surveillance Data

Presented November 21, 2017.

This presentation covers how the shiny package can complement traditional surveillance reporting through online, interactive applications. Kelley demonstrates a shiny application Cook County is currently using to share influenza data and walks through the steps she took to make the application and lessons learned. She reviews portions of the code available on Github here: https://github.com/kb230557/Flu_Shiny_App.

November 21, 2017

Correlation of school absenteeism and laboratory results for Flu A in Alberta, Canada

Rates of student absenteeism in schools have been mainly used to detect outbreaks in schools and prompt public health action to stop local transmission. A report by Kim Mogto et al.  stated that aggregated counts of school absenteeism (SAi) were correlated with PPFluA, but the sample may have been biased. The purpose of this study was to assess the correlation between aggregated rates of SAi and PPFluA for two cities, Calgary and Edmonton, in Alberta.

August 21, 2017

Surveillance system of severe influenza cases admitted to the regional ICU,2009-2015

Every year, circulating influenza viruses generate a significant number of deaths. During the 2009 pandemic influenza A(H1N1), a national non mandatory surveillance system of severe influenza cases admitted to intensive care units(ICU) was set up in France. This surveillance is regionally driven by the regional offices (CIRE) of Santé publique France, the French Public Health Agency.

August 20, 2017

The test-negative design for estimating influenza vaccination effectiveness

The test-negative design is a variation of the case-control study, in which patients are enrolled in outpatient clinics (and/or hospitals) based on a clinical case definition such as influenza-like illness (ILI). Patients are then tested for influenza virus, and VE is estimated from the odds ratio comparing the odds of vaccination among patients testing positive for influenza versus those testing negative, adjusting for potential confounding factors. The design leverages existing disease surveillance networks and as a result, studies using it are increasingly being reported.

August 20, 2017

ICD-9 code reporting among patients from the Minnesota SARI surveillance program

The ICD-9 codes for acute respiratory illness (ARI) and pneumonia/influenza (P&I) are commonly used in ARI surveillance; however, few studies evaluate the accuracy of these codes or the importance of ICD-9 position. We reviewed ICD-9 codes reported among patients identified through severe acute respiratory infection (SARI) surveillance to compare medical record documentation with medical coding and evaluated ICD-9 codes assigned to patients with influenza detections. 

July 06, 2017

Identifying Key Transmission Route of Avian Influenza A(H9N2) in Live Poultry Markets

Live poultry markets (LPMs) continue to operate in many Asian countries. Low pathogenic avian influenza (LPAI) viruses are often endemic in the poultry, and LPM presents the opportunity for human-poultry interactions and potential human infections with avian influenza viruses.

July 06, 2017

Immune response and distribution of antigen in chickens after infection LPAIV (H4N6)

Influenza is a serious problem for the health of people, animals and birds. Therefore, comprehensive study of influenza virus, its natural reservoir, pathogenesis and immune response will provide further opportunity to ensure protection for animals, birds and people from this infection. 


To study the immune response in chicken on the administration of LPAIV isolated from the natural reservoir. 

July 06, 2017


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