1. Research in Population Informatics
Michael Wagner, MD, PhD
Professor of Biomedical Informatics and Intelligent Systems

2. Probabilistic Disease Surveillance (NIGMS RO1)
Probabilistic Disease Surveillance (proposed competitive renewal). Red font indicates proposed extensions to input data, use of MetaMap instead of Topaz parsers, new algorithms, inferences, and planned integration with the GermWatch system.
Publication List
Ye Y, et al. Influenza detection from emergency department reports using natural language processing and Bayesian network classifiers. (2014) JAMIA, 21(5):815-23, PMC
Lopez PA, et al. Comparison of machine learning classifiers for influenza detection from emergency department free-text reports. (2015) J Biomed Inform. PMC
Cooper GF, et al. A Method for Detecting and characterizing outbreaks of infectious disease from clinical reports. J Biomed Inform. (2015) 53: PMC
Ye Y, et al. A study of the transferability of influenza case detection systems between two large healthcare systems. PLoS One. (2017) Apr 5;12(4):e doi: /journal.pone eCollection PMC
Ferraro JP, et al. The effects of natural language processing on cross-institutional portability of influenza case detection for disease surveillance. Appl Clin Inform. (2017) 8(2): PMID:
Aronis J, et al. A Bayesian system to detect and characterize overlapping outbreaks. J Biomed Inform (to appear).

3. MIDAS Digital Commons (NIGMS/MIDAS U24)
MIDAS Digital Commons. A FAIR Commons for infectious disease epidemiology. The Data Formats cover the input and output formats of software and the encoding formats of datasets.

4. Informatics Services Group (NIGMS/MIDAS U24)
Apollo Web Services. A set of services that support running infectious disease scenarios (IDS) on disease transmission simulators.
Aims:
Continue to develop an ontology of epidemic modeling called Apollo-SV (Structured Vocabulary)
Continue to develop the Apollo XSD (XML Schema Definition) and use it as the message syntax in the Apollo Web Service
Develop the Apollo Library and other services.

5. Selected additional ISG initiatives
Software Development Service
Olympus Cluster: High-performance computing
OBC.ide: Ontology-based catalog of information used in infectious disease epidemiology
SPEW: Synthetic populations and ecosystems of the world. For agent-based simulators
Omnivore: Converts disease surveillance count data into Apollo standard representation.
Apollo Location Service: A source of spatio-temporally coherent identifiers for locations
SPEW’s ~2 billion synthetic individuals