David W. Ussery, Ph.D.

"Taxonomic Resolution of 16S rRNA, FastANI, Mash, and FastAAI across 30,000 Type-Strain Genomes" David Ussery, Momtaz Zamila Bukharid, Ranabir Majumder, Veniamin A Borin and Arghavan Alisoltani
bioRxiv, 17(1):291-305. Published online 16 June, 2026. [doi: 10.64898/2026.07.15.738563];
submitted to the International Journal of Systematic and Evolutionary Microbiology, July, 2026.
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"A randomized double-blind placebo-controlled phase I/II clinical trial of a human papillomavirus therapeutic vaccine, PepCan, for reducing head and neck squamous cell carcinoma recurrence" Emily Bivens, Omar Atiq, Teresa Evans, Milan Bimali, Ginger Brown, Jasmine Crane, Nadia Darwish, Jennifer L Faulkner, Rangaswamy Govindarajan, Aaron Johnson, Alongkorn Kurilung, Oxana Lazarenko, Yong-Chen William Lu, Keanna Marsh, Mauricio Moreno, Intawat Nookaew, Michael Robeson, Jumin Sunde, David Ussery, Emre Vural, Mindy Wilman, Mayumi Nakagawa
Oncotarget, 17(1):291-305. Published June, 2026. [doi: 10.18632/oncotarget.28892]; [PubMed] [Press Release]

"Nicotine dependence partially mediates the association between IP6K3 genetic variation and risk of lung squamous cell carcinoma among smokers" Jing Jin, Yasir Rahmatallah, Horacio Gomez-Acevedo, Yong-Moon (Mark) Park, David Ussery, and Mohammed Orloff.
Cancer Research, 86:(7_Supplement) 7642, April, 2026. [doi: 10.1158/1538-7445.AM2026-7642]

"A Randomized Double-Blind Placebo-Controlled Phase I/II Clinical Trial of a Human Papillomavirus Therapeutic Vaccine, PepCan, for Reducing Head and Neck Cancer Recurrence" Emily Bivens, Omar Atiq, Teresa Evans, Milan Bimali, Ginger Brown, Jasmine Crane, Nadia Darwish, Jennifer L. Faulkner, Rangaswamy Govindarajan, Aaron Johnson, Alongkorn Kurilung, Oxana Lazarenko, Yong-Chen Lu, Keanna Marsh, Mauricio Moreno, Intawat Nookaew, Michael Robeson, Jumin Sunde, David Ussery, Emre Vural, Mindy Wilman, Mayumi Nakagawa
MedRxiv, posted 12 January, 2026. [doi: 10.64898/2026.01.09.26343801]

"Lost in taxonomy: Why bacterial type strains are the anchor we need" David Ussery and Ake Vastermark.
Open Access Government, January, 2026. [doi: 10.56367/OAG-049-11845]

"A Tracts of Homozygosity Approach Identifies Methylation-Regulated CSMD1 Expression Targets" Jing Jin, Yasir Rahmatallah, Horacio Gomez-Acevedo, Yong-Moon Mark Park, David W. Ussery, Ebrahim Jakoet, and Mohammed S. Orloff.
Cancer Epidemiology, Biomarkers & Prevention, 34(12):2247-2258. Dec 2025 [DOI: 10.1158/1055-9965.EPI-25-0159]; [PubMed]

"What can we learn from millions of viral genome sequences?" David Ussery and Pratul Agarwal.
Open Access Government, Sept 2025. [doi: 10.56367/OAG-048-11845]

"Using machine learning to predict the severity of Salmonella infection" David Ussery and Aakash Bhattacharyya.
Open Access Government, July 2025. [doi: 10.56367/OAG-047-11845]

"Rapid assessment of clinical severity for salmonellosis cases via protein family domain analysis and machine learning" Aakash Bhattacharyya, Sudip Panday, David Ussery.
Academia Molecular Biology and Genomics, 34(12):2247-2258. June 2025 [doi: 10.20935/AcadMolBioGen7776]; [PubMed]

"A Randomized Double-Blind Phase 2 Clinical Trial Treating Cervical Intraepithelial Neoplasia 2/3 with PepCan or Candida" Mayumi Nakagawa, Teresa Evans, Milan Bimali, Hannah Coleman, Jasmine Crane, Nadia Darwish, Jennifer L. Faulkner, Amy Jones, Haley Kelly, Benjamin J. Lieblong, Yong-Chen Lu, Keanna Marsh, Intawat Nookaew, Charles M. Quick, David Ussery, Michael Robeson, Sumit Shah, Takeo Shibata, Heather R. Williams, William Greenfield
medRxiv, posted on 19 January, 2025 [doi: 10.1101/2025.01.18.25320725]