The EcoCyc and MetaCyc databases. - Peter D. Karp; Monica Riley; Milton H. Saier Jr.; Ian T. Paulsen; Suzanne M. Paley; Alida Pellegrini-Toole (Nucleic Acids Res., 2000)

TIGRFAMs: a protein family resource for the functional identification of proteins. - Daniel H. Haft; Brendan J. Loftus; Delwood L. Richardson; Fan Yang; Jonathan A. Eisen; Ian T. Paulsen; Owen White (Nucleic Acids Res., 2001)

The EcoCyc Database. - Peter D. Karp; Monica Riley; Milton H. Saier Jr.; Ian T. Paulsen; Julio Collado-Vides; Suzanne M. Paley; Alida Pellegrini-Toole; César Bonavides-Martínez; Socorro Gama-Castro (Nucleic Acids Res., 2002)

ToxoDB: accessing the Toxoplasma gondii genome. - Jessica C. Kissinger; Bindu Gajria; Li Li; Ian T. Paulsen; David S. Roos (Nucleic Acids Res., 2003)

TransportDB: a relational database of cellular membrane transport systems. - Qinghu Ren; Katherine H. Kang; Ian T. Paulsen (Nucleic Acids Res., 2004)

EcoCyc: a comprehensive database resource for Escherichia coli. - Ingrid M. Keseler; Julio Collado-Vides; Socorro Gama-Castro; John Ingraham; Suzanne M. Paley; Ian T. Paulsen; Martín Peralta-Gil; Peter D. Karp (Nucleic Acids Res., 2005)

Comparative Analyses of Fundamental Differences in Membrane Transport Capabilities in Prokaryotes and Eukaryotes. - Qinghu Ren; Ian T. Paulsen (PLoS Comput. Biol., 2005)

TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels. - Qinghu Ren; Kaixi Chen; Ian T. Paulsen (Nucleic Acids Res., 2007)

Annotation-based inference of transporter function. - Thomas J. Lee; Ian T. Paulsen; Peter D. Karp (ISMB, 2008)

EcoCyc: A comprehensive view of Escherichia coli biology. - Ingrid M. Keseler; César Bonavides-Martínez; Julio Collado-Vides; Socorro Gama-Castro; Robert P. Gunsalus; D. Aaron Johnson; Markus Krummenacker; Laura M. Nolan; Suzanne M. Paley; Ian T. Paulsen; Martín Peralta-Gil; Alberto D. Santos-Zavaleta; et al. (Nucleic Acids Res., 2009)

Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology. - Peter D. Karp; Suzanne M. Paley; Markus Krummenacker; Mario Latendresse; Joseph M. Dale; Thomas J. Lee; Pallavi Kaipa; Fred Gilham; Aaron Spaulding; Liviu Popescu; Tomer Altman; Ian T. Paulsen; et al. (Briefings Bioinform., 2010)

EcoCyc: a comprehensive database of Escherichia coli biology. - Ingrid M. Keseler; Julio Collado-Vides; Alberto Santos-Zavaleta; Martín Peralta-Gil; Socorro Gama-Castro; Luis Muñiz-Rascado; César Bonavides-Martínez; Suzanne M. Paley; Markus Krummenacker; Tomer Altman; Pallavi Kaipa; Aaron Spaulding; et al. (Nucleic Acids Res., 2011)

EcoCyc: fusing model organism databases with systems biology. - Ingrid M. Keseler; Amanda Mackie; Martín Peralta-Gil; Alberto Santos-Zavaleta; Socorro Gama-Castro; César Bonavides-Martínez; Carol A. Fulcher; Araceli M. Huerta; Anamika Kothari; Markus Krummenacker; Mario Latendresse; Luis Muñiz-Rascado; et al. (Nucleic Acids Res., 2013)

A genome-scale metabolic flux model of Escherichia coli K-12 derived from the EcoCyc database. - Daniel S. Weaver; Ingrid M. Keseler; Amanda Mackie; Ian T. Paulsen; Peter D. Karp (BMC Syst. Biol., 2014)

TransportDB 2.0: a database for exploring membrane transporters in sequenced genomes from all domains of life. - Liam D. H. Elbourne; Sasha G. Tetu; Karl A. Hassan; Ian T. Paulsen (Nucleic Acids Res., 2017)

The EcoCyc database: reflecting new knowledge about Escherichia coli K-12. - Ingrid M. Keseler; Amanda Mackie; Alberto Santos-Zavaleta; Richard Billington; César Bonavides-Martínez; Ron Caspi; Carol A. Fulcher; Socorro Gama-Castro; Anamika Kothari; Markus Krummenacker; Mario Latendresse; Luis Muñiz-Rascado; et al. (Nucleic Acids Res., 2017)