Alina Deshpande

Group Leader - Biosecurity and Public Health




Preferred Pronouns


Personal Academic Website

Research/Topics of Interest

Antibiotic resistance
Apply models to public health
Machine learning models
Outbreak science
Public health application of models
Surveillance/case detection
disease re-emergence
visual analytics
outbreak investigation

Pathogens/Diseases of Main Interest/Expertise

Diarrheal diseases
Pandemic influenza
Respiratory diseases
Vaccine-preventable diseases
Vector-borne diseases

Countries of Work/Collaboration

United States



Velappan N, Davis-Anderson K, Deshpande A. (2022). Warning Signs of Potential Black Swan Outbreaks in Infectious Disease. Frontiers in microbiology, (13)

Pollett S, Johansson MA, Reich NG, Brett-Major D, Del Valle SY, Venkatramanan S, Lowe R, Porco T, Berry IM, Deshpande A, Kraemer MUG, Blazes DL, Pan-Ngum W, Vespigiani A, Mate SE, Silal SP, Kandula S, Sippy R, Quandelacy TM, Morgan JJ, Ball J, Morton LC, Althouse BM, Pavlin J, van Panhuis W, Riley S, Biggerstaff M, Viboud C, Brady O, Rivers C. (2021). Recommended reporting items for epidemic forecasting and prediction research: The EPIFORGE 2020 guidelines. PLoS medicine, 18(10)

Parikh N, Daughton AR, Rosenberger WE, Aberle DJ, Chitanvis ME, Altherr FM, Velappan N, Fairchild G, Deshpande A. (2021). Improving Detection of Disease Re-emergence Using a Web-Based Tool (RED Alert): Design and Case Analysis Study. JMIR public health and surveillance, 7(1)

Velappan N, Daughton AR, Fairchild G, Rosenberger WE, Generous N, Chitanvis ME, Altherr FM, Castro LA, Priedhorsky R, Abeyta EL, Naranjo LA, Hollander AD, Vuyisich G, Lillo AM, Cloyd EK, Vaidya AR, Deshpande A. (2019). Analytics for Investigation of Disease Outbreaks: Web-Based Analytics Facilitating Situational Awareness in Unfolding Disease Outbreaks. JMIR public health and surveillance, 5(1)

Chitanvis M, Daughton AR, Altherr F, Parikh N, Fairchild G, Rosenberger W, Velappan N, Hollander A, Alipio-Lyon E, Vuyisich G, Aberle D, Deshpande A. Development of a Supervised Learning Algorithm for Detection of Potential Disease Reemergence: A Proof of Concept. Health security, 17(4)

Fairchild G, Tasseff B, Khalsa H, Generous N, Daughton AR, Velappan N, Priedhorsky R, Deshpande A. (2018). Epidemiological Data Challenges: Planning for a More Robust Future Through Data Standards. Frontiers in public health, (6)

Daughton AR, Generous N, Priedhorsky R, Deshpande A. (2017). An approach to and web-based tool for infectious disease outbreak intervention analysis. Scientific reports, (7)

Daughton AR, Priedhorsky R, Fairchild G, Generous N, Hengartner A, Abeyta E, Velappan N, Lillo A, Stark K, Deshpande A. (2017). An extensible framework and database of infectious disease for biosurveillance. BMC infectious diseases, 17(1)

Priedhorsky R, Osthus D, Daughton AR, Moran KR, Generous N, Fairchild G, Deshpande A, Del Valle SY. (2017). Measuring Global Disease with Wikipedia: Success, Failure, and a Research Agenda. CSCW : proceedings of the Conference on Computer-Supported Cooperative Work. Conference on Computer-Supported Cooperative Work, (2017)

Woods TA, Mendez HM, Ortega S, Shi X, Marx D, Bai J, Moxley RA, Nagaraja TG, Graves SW, Deshpande A. (2016). Development of 11-Plex MOL-PCR Assay for the Rapid Screening of Samples for Shiga Toxin-Producing Escherichia coli. Frontiers in cellular and infection microbiology, (6)

Margevicius KJ, Generous N, Abeyta E, Althouse B, Burkom H, Castro L, Daughton A, Del Valle SY, Fairchild G, Hyman JM, Kiang R, Morse AP, Pancerella CM, Pullum L, Ramanathan A, Schlegelmilch J, Scott A, Taylor-McCabe KJ, Vespignani A, Deshpande A. (2016). The Biosurveillance Analytics Resource Directory (BARD): Facilitating the Use of Epidemiological Models for Infectious Disease Surveillance. PloS one, 11(1)

Daughton AR, Velappan N, Abeyta E, Priedhorsky R, Deshpande A. (2016). Novel Use of Flu Surveillance Data: Evaluating Potential of Sentinel Populations for Early Detection of Influenza Outbreaks. PloS one, 11(7)

Hickmann KS, Fairchild G, Priedhorsky R, Generous N, Hyman JM, Deshpande A, Del Valle SY. (2015). Forecasting the 2013-2014 influenza season using Wikipedia. PLoS computational biology, 11(5)

Generous N, Margevicius KJ, Taylor-McCabe KJ, Brown M, Daniel WB, Castro L, Hengartner A, Deshpande A. (2014). Selecting essential information for biosurveillance--a multi-criteria decision analysis. PloS one, 9(1)

Margevicius KJ, Generous N, Taylor-McCabe KJ, Brown M, Daniel WB, Castro L, Hengartner A, Deshpande A. (2014). Advancing a framework to enable characterization and evaluation of data streams useful for biosurveillance. PloS one, 9(1)

Generous N, Fairchild G, Deshpande A, Del Valle SY, Priedhorsky R. (2014). Global disease monitoring and forecasting with Wikipedia. PLoS computational biology, 10(11)

Deshpande A, White PS. (2012). Multiplexed nucleic acid-based assays for molecular diagnostics of human disease. Expert review of molecular diagnostics, 12(6)

Deshpande A, Gans J, Graves SW, Green L, Taylor L, Kim HB, Kunde YA, Leonard PM, Li PE, Mark J, Song J, Vuyisich M, White PS. (2010). A rapid multiplex assay for nucleic acid-based diagnostics. Journal of microbiological methods, 80(2)

Deshpande A, Wheeler CM, Hunt WC, Peyton CL, White PS, Valdez YE, Nolan JP. (2008). Variation in HLA class I antigen-processing genes and susceptibility to human papillomavirus type 16-associated cervical cancer. The Journal of infectious diseases, 197(3)

Deshpande A, Hammon RJ, Sanders CK, Graves SW. (2006). Quantitative analysis of the effect of cell type and cellular differentiation on protective antigen binding to human target cells. FEBS letters, 580(17)

Deshpande A, Nolan JP, White PS, Valdez YE, Hunt WC, Peyton CL, Wheeler CM. (2005). TNF-alpha promoter polymorphisms and susceptibility to human papillomavirus 16-associated cervical cancer. The Journal of infectious diseases, 191(6)

Deshpande A, Valdez Y, Nolan JP. (2005). Multiplexed SNP genotyping using primer single-base extension (SBE) and microsphere arrays. Current protocols in cytometry, (Chapter 13)

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