PhyloBLAST: facilitating phylogenetic analysis of BLAST results. - Fiona S. L. Brinkman; Ivan Wan; Robert E. W. Hancock; Ann M. Rose; Steven J. M. Jones (Bioinform., 2001)

Frequent-subsequence-based prediction of outer membrane proteins. - Rong She; Fei Chen 002; Ke Wang 001; Martin Ester; Jennifer L. Gardy; Fiona S. L. Brinkman (KDD, 2003)

IslandPath: aiding detection of genomic islands in prokaryotes. - William W. L. Hsiao; Ivan Wan; Steven J. M. Jones; Fiona S. L. Brinkman (Bioinform., 2003)

PSORT-B: improving protein subcellular localization prediction for Gram-negative bacteria. - Jennifer L. Gardy; Cory Spencer; Ke Wang 001; Martin Ester; Gábor E. Tusnády; István Simon; Sujun Hua; Katalin de Fays; Christophe G. Lambert; Kenta Nakai; Fiona S. L. Brinkman (Nucleic Acids Res., 2003)

ArrayPipe: a flexible processing pipeline for microarray data. - Karsten Hokamp; Fiona M. Roche; Michael Acab; Marc-Etienne Rousseau; Byron Kuo; David L. Goode; Dana Aeschliman; Jenny Bryan; Lorne A. Babiuk; Robert E. W. Hancock; Fiona S. L. Brinkman (Nucleic Acids Res., 2004)

ProbeLynx: a tool for updating the association of microarray probes to genes. - Fiona M. Roche; Karsten Hokamp; Michael Acab; Lorne A. Babiuk; Robert E. W. Hancock; Fiona S. L. Brinkman (Nucleic Acids Res., 2004)

PSORTb v.2.0: Expanded prediction of bacterial protein subcellular localization and insights gained from comparative proteome analysis. - Jennifer L. Gardy; Matthew R. Laird; Fei Chen 002; Sébastien Rey; C. J. Walsh; Martin Ester; Fiona S. L. Brinkman (Bioinform., 2005)

PSORTdb: a protein subcellular localization database for bacteria. - Sébastien Rey; Michael Acab; Jennifer L. Gardy; Matthew R. Laird; Katalin de Fays; Christophe G. Lambert; Fiona S. L. Brinkman (Nucleic Acids Res., 2005)

Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation. - Geoffrey L. Winsor; Raymond Lo; Shannan J. Ho Sui; Korine S. E. Ung; Shao-Shan Huang; Dean Cheng; Wai-Kay Ho Ching; Robert E. W. Hancock; Fiona S. L. Brinkman (Nucleic Acids Res., 2005)

Improving the specificity of high-throughput ortholog prediction. - Debra L. Fulton; Yvonne Y. Li; Matthew R. Laird; Benjamin G. S. Horsman; Fiona M. Roche; Fiona S. L. Brinkman (BMC Bioinform., 2006)

The Burkholderia Genome Database: facilitating flexible queries and comparative analyses. - Geoffrey L. Winsor; Bhavjinder Khaira; Thea Van Rossum; Raymond Lo; Matthew D. Whiteside; Fiona S. L. Brinkman (Bioinform., 2008)

Evaluation of genomic island predictors using a comparative genomics approach. - Morgan G. I. Langille; William W. L. Hsiao; Fiona S. L. Brinkman (BMC Bioinform., 2008)

IslandViewer: an integrated interface for computational identification and visualization of genomic islands. - Morgan G. I. Langille; Fiona S. L. Brinkman (Bioinform., 2009)

Pseudomonas Genome Database: facilitating user-friendly, comprehensive comparisons of microbial genomes. - Geoffrey L. Winsor; Thea Van Rossum; Raymond Lo; Bhavjinder Khaira; Matthew D. Whiteside; Robert E. W. Hancock; Fiona S. L. Brinkman (Nucleic Acids Res., 2009)

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes. - Nancy Y. Yu; James R. Wagner; Matthew R. Laird; Gabor Melli; Sébastien Rey; Raymond Lo; Phuong Dao; Süleyman Cenk Sahinalp; Martin Ester; Leonard J. Foster; Fiona S. L. Brinkman (Bioinform., 2010)

Curating the innate immunity interactome. - David J. Lynn; Calvin Chan; Misbah Naseer; Melissa Yau; Raymond Lo; Anastasia Sribnaia; Giselle Ring; Jaimmie Que; Kathleen Wee; Geoffrey L. Winsor; Matthew R. Laird; Karin Breuer; et al. (BMC Syst. Biol., 2010)

A statistical approach to high-throughput screening of predicted orthologs. - Jeong Eun Min; Matthew D. Whiteside; Fiona S. L. Brinkman; Brad McNeney; Jinko Graham (Comput. Stat. Data Anal., 2011)

Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes. - Geoffrey L. Winsor; David K. W. Lam; Leanne Fleming; Raymond Lo; Matthew D. Whiteside; Nancy Y. Yu; Robert E. W. Hancock; Fiona S. L. Brinkman (Nucleic Acids Res., 2011)

PSORTdb - an expanded, auto-updated, user-friendly protein subcellular localization database for Bacteria and Archaea. - Nancy Y. Yu; Matthew R. Laird; Cory Spencer; Fiona S. L. Brinkman (Nucleic Acids Res., 2011)

MicrobeDB: a locally maintainable database of microbial genomic sequences. - Morgan G. I. Langille; Matthew R. Laird; William W. L. Hsiao; Terry A. Chiu; Jonathan A. Eisen; Fiona S. L. Brinkman (Bioinform., 2012)

InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. - Karin Breuer; Amir K. Foroushani; Matthew R. Laird; Carol Chen; Anastasia Sribnaia; Raymond Lo; Geoffrey L. Winsor; Robert E. W. Hancock; Fiona S. L. Brinkman; David J. Lynn (Nucleic Acids Res., 2013)

IslandViewer update: improved genomic island discovery and visualization. - Bhavjinder K. Dhillon; Terry A. Chiu; Matthew R. Laird; Morgan G. I. Langille; Fiona S. L. Brinkman (Nucleic Acids Res., 2013)

OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis. - Matthew D. Whiteside; Geoffrey L. Winsor; Matthew R. Laird; Fiona S. L. Brinkman (Nucleic Acids Res., 2013)

CerebralWeb: a Cytoscape.js plug-in to visualize networks stratified by subcellular localization. - Silvia Frias; Kenneth Bryan; Fiona S. L. Brinkman; David J. Lynn (Database J. Biol. Databases Curation, 2015)

GenomeD3Plot: a library for rich, interactive visualizations of genomic data in web applications. - Matthew R. Laird; Morgan G. I. Langille; Fiona S. L. Brinkman (Bioinform., 2015)

Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities. - Michael A. Peabody; Thea Van Rossum; Raymond Lo; Fiona S. L. Brinkman (BMC Bioinform., 2015)

IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis. - Bhavjinder K. Dhillon; Matthew R. Laird; Julie A. Shay; Geoffrey L. Winsor; Raymond Lo; Fazmin Nizam; Sheldon K. Pereira; Nicholas Waglechner; Andrew G. McArthur; Morgan G. I. Langille; Fiona S. L. Brinkman (Nucleic Acids Res., 2015)

An OBI Ontology Datum Proof Sheet. - Damion M. Dooley; Emma J. Griffiths; Fiona S. L. Brinkman; William W. L. Hsiao (ICBO/BioCreative, 2016)

FoodON: A Global Farm-to-Fork Food Ontology. - Emma J. Griffiths; Damion M. Dooley; Pier Luigi Buttigieg; Robert Hoehndorf; Fiona S. L. Brinkman; William W. L. Hsiao (ICBO/BioCreative, 2016)

PSORTdb: expanding the bacteria and archaea protein subcellular localization database to better reflect diversity in cell envelope structures. - Michael A. Peabody; Matthew R. Laird; Caitlyn Vlasschaert; Raymond Lo; Fiona S. L. Brinkman (Nucleic Acids Res., 2016)

Enhanced annotations and features for comparing thousands of Pseudomonas genomes in the Pseudomonas genome database. - Geoffrey L. Winsor; Emma J. Griffiths; Raymond Lo; Bhavjinder K. Dhillon; Julie A. Shay; Fiona S. L. Brinkman (Nucleic Acids Res., 2016)

FoodOn: A Semantic Ontology Approach for Mapping Foodborne Disease Metadata. - Dalia A. Alghamdi; Damion M. Dooley; Gurinder Gosal; Emma J. Griffiths; Fiona S. L. Brinkman; William W. L. Hsiao (ICBO, 2017)

The Genomic Epidemiology Ontology and GEEM Ontology Reusability Platform. - Damion M. Dooley; Emma J. Griffiths; Gurinder Gosal; Fiona S. L. Brinkman; William W. L. Hsiao (JOWO, 2017)

IslandViewer 4: expanded prediction of genomic islands for larger-scale datasets. - Claire Bertelli; Matthew R. Laird; Kelly P. Williams; Britney Y. Lau; Gemma Hoad; Geoffrey L. Winsor; Fiona S. L. Brinkman (Nucleic Acids Res., 2017)

CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database. - Baofeng Jia; Amogelang R. Raphenya; Brian P. Alcock; Nicholas Waglechner; Peiyao Guo; Kara K. Tsang; Briony A. Lago; Biren M. Dave; Sheldon K. Pereira; Arjun N. Sharma; Sachin Doshi; Mélanie Courtot; et al. (Nucleic Acids Res., 2017)

Improved genomic island predictions with IslandPath-DIMOB. - Claire Bertelli; Fiona S. L. Brinkman (Bioinform., 2018)

Microbial genomic island discovery, visualization and analysis. - Claire Bertelli; Keith E. Tilley; Fiona S. L. Brinkman (Briefings Bioinform., 2019)

PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data. - Michael A. Peabody; Wing Yin Venus Lau; Gemma Hoad; Baofeng Jia; Finlay Maguire; Kristen L. Gray; Robert G. Beiko; Fiona S. L. Brinkman (Bioinform., 2020)

CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database. - Brian P. Alcock; Amogelang R. Raphenya; Tammy T. Y. Lau; Kara K. Tsang; Mégane Bouchard; Arman Edalatmand; William Huynh; Anna-Lisa V. Nguyen; Annie A. Cheng; Sihan Liu; Sally Y. Min; Anatoly Miroshnichenko; et al. (Nucleic Acids Res., 2020)

PSORTdb 4.0: expanded and redesigned bacterial and archaeal protein subcellular localization database incorporating new secondary localizations. - Wing Yin Venus Lau; Gemma Hoad; Vivian Jin; Geoffrey L. Winsor; Ashmeet Madyan; Kristen L. Gray; Matthew R. Laird; Raymond Lo; Fiona S. L. Brinkman (Nucleic Acids Res., 2021)

CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database. - Brian P. Alcock; William Huynh; Romeo Chalil; Keaton W. Smith; Amogelang R. Raphenya; Mateusz A. Wlodarski; Arman Edalatmand; Aaron J. Petkau; Sohaib A. Syed; Kara K. Tsang; Sheridan J. C. Baker; Mugdha Dave; et al. (Nucleic Acids Res., 2023)