MANET: tracing evolution of protein architecture in metabolic networks. - Hee Shin Kim; Jay E. Mittenthal; Gustavo Caetano-Anollés (BMC Bioinform., 2006)

A phylogenomic reconstruction of the protein world based on a genomic census of protein fold architecture. - Minglei Wang; Simina Maria Boca; Rakhee Kalelkar; Jay E. Mittenthal; Gustavo Caetano-Anollés (Complex., 2006)

NOBAI: a web server for character coding of geometrical and statistical features in RNA structure. - Vegeir Knudsen; Gustavo Caetano-Anollés (Nucleic Acids Res., 2008)

Evolutionary Patterns in the Sequence and Structure of Transfer RNA: Early Origins of Archaea and Viruses. - Feng-Jie Sun; Gustavo Caetano-Anollés (PLoS Comput. Biol., 2008)

The evolutionary significance of the long variable arm in transfer RNA. - Feng-Jie Sun; Gustavo Caetano-Anollés (Complex., 2009)

The ancient history of the structure of ribonuclease P and the early origins of Archaea. - Feng-Jie Sun; Gustavo Caetano-Anollés (BMC Bioinform., 2010)

Evolution of protein architectures inferred from phylogenomic analysis of CATH. - Syed Abbas Bukhari; Gustavo Caetano-Anollés (BIBM Workshops, 2011)

Integration of statistical models and visualization tools to characterize microRNA networks influencing cancer. - James Karnia; Kristin R. Delfino; Maria B. Villamil; Gustavo Caetano-Anollés; Sandra L. Rodriguez-Zas (BIBM Workshops, 2011)

The functional make up of proteomes is remarkably conserved. - Arshan Nasir; Aisha Naeem; Muhammad Jawad Khan; Horacio Daniel Lopez-Nicora; Gustavo Caetano-Anollés (BIBM Workshops, 2011)

Additive and multiplicative genome-wide association models identify genes associated with growth. - Cynthia Zavala; Nicola V. L. Serao; Maria B. Villamil; Gustavo Caetano-Anollés; Sandra L. Rodriguez-Zas (BIBM Workshops, 2011)

Stress induces biphasic-rewiring and modularization patterns in the metabolomic networks of Escherichia coli. - M. Fayez Aziz; Philemon Chan; Johan S. Osorio; Bushra F. Minhas; Vaisak Parekatt; Gustavo Caetano-Anollés (BIBM, 2012)

The Impact of Oxygen on Metabolic Evolution: A Chemoinformatic Investigation. - Ying-Ying Jiang; De-Xin Kong; Tao Qin; Xiao Li 010; Gustavo Caetano-Anollés; Hong-yu Zhang (PLoS Comput. Biol., 2012)

Widespread Recruitment of Ancient Domain Structures in Modern Enzymes during Metabolic Evolution. - Hee Shin Kim; Jay E. Mittenthal; Gustavo Caetano-Anollés (J. Integr. Bioinform., 2013)

Origin and Evolution of Protein Fold Designs Inferred from Phylogenomic Analysis of CATH Domain Structures in Proteomes. - Syed Abbas Bukhari; Gustavo Caetano-Anollés (PLoS Comput. Biol., 2013)

Evolutionary Optimization of Protein Folding. - Cédric Debès; Minglei Wang; Gustavo Caetano-Anollés; Frauke Gräter (PLoS Comput. Biol., 2013)

Global Patterns of Protein Domain Gain and Loss in Superkingdoms. - Arshan Nasir; Kyung Mo Kim; Gustavo Caetano-Anollés (PLoS Comput. Biol., 2014)

The Natural History of Biocatalytic Mechanisms. - Neetika Nath; John B. O. Mitchell; Gustavo Caetano-Anollés (PLoS Comput. Biol., 2014)

The organization of domains in proteins obeys Menzerath-Altmann's law of language. - Khuram Shahzad; Jay E. Mittenthal; Gustavo Caetano-Anollés (BMC Syst. Biol., 2015)

Phylogenetic profiling, an untapped resource for the prediction of secreted proteins and its complementation with sequence-based classifiers in bacterial type III, IV and VI secretion systems. - Andrés Zalguizuri; Gustavo Caetano-Anollés; Viviana Claudia Lepek (Briefings Bioinform., 2019)