The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. - Leslie Klis McNeil; Claudia Reich; Ramy K. Aziz; Daniela Bartels; Matthew Cohoon; Terry Disz; Robert A. Edwards; Svetlana Gerdes; Kaitlyn Hwang; Michael Kubal; Gohar Rem Margaryan; Folker Meyer; et al. (Nucleic Acids Res., 2007)

Bioinformatics determination of ETEC signature genes as potential targets for molecular diagnosis and reverse vaccinology. - Heba M. Amin; Abdel-Gawad M. Hashem; Ramy K. Aziz (BMC Bioinform., 2009)

Reconstructing the virulome of the human pathogen Streptococcus pyogenes using NMPDR subsystems-based annotation. - Ramy K. Aziz; Leslie Klis McNeil (BMC Bioinform., 2009)

Subsystems-based servers for rapid annotation of genomes and metagenomes. - Ramy K. Aziz (BMC Bioinform., 2010)

In silico analysis of a family of extracellular polysaccharide deacetylases involved in virulence of pathogenic gram-positive cocci. - Ramy Karam Aziz (BMC Bioinform., 2010)

Integrating neighbor clustering, coexpression clustering and subsystems analysis to define dynamic changes in regulatory networks associated with group A streptococcal sociomicrobiology and niche adaptation. - Ramy K. Aziz; Bruce J. Aronow; William L. Taylor; Sarah Rowe; Rita Kansal; Mark J. Walker; Malak Kotb (BMC Bioinform., 2010)

Do pathogenic bacteria encode more secreted proteins than their non-pathogenic relatives? - Ahmed Abo-Bakr Mahmoud; Ramy K. Aziz (BMC Bioinform., 2010)

Phage Eco-Locator: a web tool for visualization and analysis of phage genomes in metagenomic data sets. - Ramy K. Aziz; Bhakti Dwivedi; Mya Breitbart; Robert A. Edwards (BMC Bioinform., 2011)

PharmacoMicrobiomics or how bugs modulate drugs: an educational initiative to explore the effects of human microbiome on drugs. - Ramy K. Aziz; Rama Saad; Mariam R. Rizkallah (BMC Bioinform., 2011)

PATRIC as a unique resource for studying antimicrobial resistance. - Dionysios A. Antonopoulos; Rida Assaf; Ramy Karam Aziz; Thomas S. Brettin; Christopher Bun; Neal Conrad; James J. Davis 002; Emily M. Dietrich; Terry Disz; Svetlana Gerdes; Ronald W. Kenyon; Dustin Machi; et al. (Briefings Bioinform., 2019)

The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities. - James J. Davis 002; Alice R. Wattam; Ramy K. Aziz; Thomas S. Brettin; Ralph Butler; Rory Butler; Philippe Chlenski; Neal Conrad; Allan Dickerman; Emily M. Dietrich; Joseph L. Gabbard; Svetlana Gerdes; et al. (Nucleic Acids Res., 2020)