| NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats JW Sahl, D Lemmer, J Travis, JM Schupp, JD Gillece, M Aziz, EM Driebe, ... Microbial genomics 2 (8), e000074, 2016 | 244 | 2016 |
| Revisiting the evolution of mouse LINE-1 in the genomic era A Sookdeo, CM Hepp, MA McClure, S Boissinot Mobile DNA 4, 1-15, 2013 | 180 | 2013 |
| High Leptospira Diversity in Animals and Humans Complicates the Search for Common Reservoirs of Human Disease in Rural Ecuador V Barragan, J Chiriboga, E Miller, S Olivas, D Birdsell, C Hepp, ... PLoS neglected tropical diseases 10 (9), e0004990, 2016 | 89 | 2016 |
| A Bacillus anthracis genome sequence from the Sverdlovsk 1979 autopsy specimens JW Sahl, T Pearson, R Okinaka, JM Schupp, JD Gillece, H Heaton, ... MBio 7 (5), 10.1128/mbio. 01501-16, 2016 | 81 | 2016 |
| Local Population Structure and Patterns of Western Hemisphere Dispersal for Coccidioides spp., the Fungal Cause of Valley Fever DM Engelthaler, CC Roe, CM Hepp, M Teixeira, EM Driebe, JM Schupp, ... MBio 7 (2), 10.1128/mbio. 00550-16, 2016 | 81 | 2016 |
| Genotyping of Burkholderia mallei from an Outbreak of Glanders in Bahrain Suggests Multiple Introduction Events HC Scholz, T Pearson, H Hornstra, M Projahn, R Terzioglu, R Wernery, ... PLoS neglected tropical diseases 8 (9), e3195, 2014 | 64 | 2014 |
| Using Whole Genome Analysis to Examine Recombination across Diverse Sequence Types of Staphylococcus aureus EM Driebe, JW Sahl, C Roe, JR Bowers, JM Schupp, JD Gillece, E Kelley, ... PLoS One 10 (7), e0130955, 2015 | 60 | 2015 |
| Whole genome analysis of injectional anthrax identifies two disease clusters spanning more than 13 years P Keim, R Grunow, R Vipond, G Grass, A Hoffmaster, DN Birdsell, ... EBioMedicine 2 (11), 1613-1618, 2015 | 44 | 2015 |
| Temporal phylogeography of Yersinia pestis in Madagascar: Insights into the long-term maintenance of plague AJ Vogler, V Andrianaivoarimanana, S Telfer, CM Hall, JW Sahl, ... PLoS neglected tropical diseases 11 (9), e0005887, 2017 | 42 | 2017 |
| The In Silico Genotyper (ISG): an open-source pipeline to rapidly identify and annotate nucleotide variants for comparative genomics applications JW Sahl, SM Beckstrom-Sternberg, JS Babic-Sternberg, JD Gillece, ... bioRxiv, 015578, 2015 | 42 | 2015 |
| Range-wide genetic analysis of Dermacentor variabilis and its Francisella-like endosymbionts demonstrates phylogeographic concordance between both taxa EL Kaufman, NE Stone, GA Scoles, CM Hepp, JD Busch, DM Wagner Parasites & vectors 11, 1-11, 2018 | 36 | 2018 |
| The Northern Arizona SNP Pipeline (NASP): accurate, flexible, and rapid identification of SNPs in WGS datasets JW Sahl, D Lemmer, J Travis, JM Schupp, JD Gillece, M Aziz, EM Driebe, ... bioRxiv, 037267, 2016 | 30 | 2016 |
| An early pandemic analysis of SARS-CoV-2 population structure and dynamics in Arizona JT Ladner, BB Larsen, JR Bowers, CM Hepp, E Bolyen, M Folkerts, ... MBio 11 (5), 10.1128/mbio. 02107-20, 2020 | 28 | 2020 |
| Health disparities and converging epidemics in jail populations: protocol for a mixed-methods study RT Trotter II, R Camplain, ER Eaves, VY Fofanov, NO Dmitrieva, CM Hepp, ... JMIR research protocols 7 (10), e10337, 2018 | 28 | 2018 |
| Sample pooling methods for efficient pathogen screening: Practical implications TN Furstenau, JH Cocking, CM Hepp, VY Fofanov PLoS One 15 (11), e0236849, 2020 | 24 | 2020 |
| Phylogeny of the jacchus group of Callithrix marmosets based on complete mitochondrial genomes J Malukiewicz, CM Hepp, K Guschanski, AC Stone American Journal of Physical Anthropology 162 (1), 157-169, 2017 | 24 | 2017 |
| Dating the Cryptococcus gattii dispersal to the North American pacific northwest CC Roe, J Bowers, H Oltean, E DeBess, PJ Dufresne, S McBurney, ... Msphere 3 (1), 10.1128/msphere. 00499-17, 2018 | 23 | 2018 |
| Phylogenetic analysis of West Nile Virus in Maricopa County, Arizona: Evidence for dynamic behavior of strains in two major lineages in the American Southwest CM Hepp, JH Cocking, M Valentine, SJ Young, D Damian, ... PLoS One 13 (11), e0205801, 2018 | 22 | 2018 |
| Pathogen to commensal? Longitudinal within-host population dynamics, evolution, and adaptation during a chronic >16-year Burkholderia pseudomallei infection T Pearson, JW Sahl, CM Hepp, K Handady, H Hornstra, AJ Vazquez, ... PLoS pathogens 16 (3), e1008298, 2020 | 21 | 2020 |
| Reproducibly sampling SARS-CoV-2 genomes across time, geography, and viral diversity E Bolyen, MR Dillon, NA Bokulich, JT Ladner, BB Larsen, CM Hepp, ... F1000Research 9, 2020 | 20 | 2020 |
