While the various clustering methods resulted in slightly different final hierarchies, all were consistent in separating the unexposed control from the samples exposed to B. anthracis or to the Y. pestis and near neighbors. Agreement on this level among the various clustering procedures lends more confidence to the overall results. On a more detailed level, the methods grouped slightly differently the samples exposed to the Y. pestis and near neighbors, which indicates that these samples cannot be unequivocally

separated based on the current data and additional biomarkers or a larger sample set would be needed. The most advanced HOPACH method estimated the optimal number of clusters in the data as five, corresponding to the unexposed control, CX-5461 research buy and the four species: B. anthracis, Y. pseudotuberculosis, Y. enterocolitica, and Y. pestis (avirulent and virulent) (Figure 3). Information gained from the targeted protein array data for host response complements genomic [52–56], and other proteomic studies [57–60] of host-pathogen interactions. The success of the WEEM and computational method to distinguish pathogen exposure, based on host response in this initial study, is encouraging and suggests a number of possibilities for future studies to refine the findings. Comparative analysis, such as the current work, can potentially reveal the critical pathogenic mechanism(s) and host innate immune responses

during infection as was previously shown for Y. pestis and Y. pseudotuberculosis[61]. Opportunities include using LGX818 price statistical hypothesis tests based on analysis of variance to assess the significance of the observed differences among the host-pathogen cytokine concentration profiles, as well as performing follow-up studies to focus more on the Y. pestis and near neighbor cluster. In addition, the methods can be extended to investigate host responses to diverse HSP phosphorylation pathogens in multiple host model

systems to cross validate the significance of the biomarkers to distinguish pathogen exposures. Conclusion Results from this study suggest that cytokine arrays coupled with statistical clustering methods can distinguish exposures to pathogens, including multiple Cyclin-dependent kinase 3 strains of Y. pestis, Y. pseudotuberculosis, Y. enterocolitica, and B. anthracis. These methods differentiate both near neighbors and distant evolutionary microbes based on host response data. The distinct cytokine profiles also provide insight into both the host response and virulence mechanisms of diverse pathogens. In summary, characterization of host responses based on cytokine profiles has translational application, potentially providing the identification of infectious diseases and leading toward the ultimate goal of presymptomatic detection via sentinel surveillance of pathogen exposure and appropriate treatment. Acknowledgments We thank David Callender, Jonathan E. Forman, and Renee Tobias from Zyomyx for their assistance with the biochip analyses.