Original (reduced version) of the StarPep Database

Aguilera-Mendoza L, Marrero-Ponce Y, Tellez-Ibarra R, Llorente-Quesada MT, Salgado J, Barigye SJ, Liu J. Overlap and diversity in antimicrobial peptide databases: compiling a non-redundant set of sequences. Bioinformatics. 2015 Aug 1;31(15):2553-9. doi: 10.1093/bioinformatics/btv180. Epub 2015 Mar 29. PMID: 25819673.

Extended Version of the StarPep Databse and main Algorithms in StarPep Toolbox

Aguilera-Mendoza, L., Marrero-Ponce, Y., García-Jacas, C.R. et al. Automatic construction of molecular similarity networks for visual graph mining in chemical space of bioactive peptides: an unsupervised learning approach. Sci Rep 10, 18074 (2020). https://doi.org/10.1038/s41598-020-75029-1.

Software StarPep ToolBox

Longendri Aguilera-Mendoza, Sebastián Ayala-Ruano, Felix Martinez-Rios, Edgar Chavez, César R García-Jacas, Carlos A Brizuela, Yovani Marrero-Ponce. StarPep Toolbox: an open-source software to assist chemical space analysis of bioactive peptides and their functions using complex networks. Bioinformatics 2023, 39 (8) https://doi.org/10.1093/bioinformatics/btad506.

Tumor-Homing Peptides:

Romero, M.; Marrero-Ponce, Y.; Rodríguez, H.; Agüero-Chapin, G.; Antunes, A.; Aguilera-Mendoza, L.; Martinez-Rios, F. A Novel Network Science and Similarity-Searching-Based Approach for Discovering Potential Tumor-Homing Peptides from Antimicrobials. Antibiotics 2022, 11, 401. https://doi.org/10.3390/antibiotics11030401.

AntiParasitic Peptides:

Network Science and Group Fusion Similarity-Based Searching to Explore the Chemical Space of Antiparasitic Peptides. Sebastián Ayala-Ruano, Yovani Marrero-Ponce, Longendri Aguilera-Mendoza, Noel Pérez, Guillermin Agüero-Chapin, Agostinho Antunes, Ana Cristina Aguilar. ACS Omega 2022, 7, 50, 46012–46036. https://doi.org/10.1021/acsomega.2c03398.

Hemolytic Toxicity

Kevin Castillo-Mendieta, Guillermin Agüero-Chapin, Edgar Marquez, Yunierkis Perez-Castillo, Stephen J. Barigye, Mariela Pérez-Cárdenas, Facundo Peréz-Giménez, Yovani Marrero-Ponce. Multiquery Similarity Searching Models: An Alternative Approach for Predicting Hemolytic Activity from Peptide Sequence. Chemical Research in Toxicology 2024, 37 (4), 580-589. https://doi.org/10.1021/acs.chemrestox.3c00408.

Kevin Castillo-Mendieta, Guillermin Agüero-Chapin, Edgar A. Marquez, Yunierkis Perez-Castillo, Stephen J. Barigye, Nelson Santiago Vispo, Cesar R. García-Jacas, Yovani Marrero-Ponce. Peptide hemolytic activity analysis using visual data mining of similarity-based complex networks. npj Systems Biology and Applications 2024, 10 (1) https://doi.org/10.1038/s41540-024-00429-2.

Kevin Castillo-Mendieta, Guillermin Agüero-Chapin, José R Mora, Noel Pérez, Ernesto Contreras-Torres, José R Valdes-Martini, Felix Martinez-Rios, Yovani Marrero-Ponce. Unraveling the hemolytic toxicity tapestry of peptides using chemical space complex networks. Toxicological Sciences 2024, 202 (2), 236-249. https://doi.org/10.1093/toxsci/kfae115.

Antiviral Peptides:

Daniela de Llano García, Yovani Marrero-Ponce, Guillermin Agüero-Chapin, Francesc J. Ferri, Agostinho Antunes, Felix Martinez-Rios, Hortensia Rodríguez. Innovative Alignment-Based Method for Antiviral Peptide Prediction. Antibiotics 2024, 13 (8), 768. https://doi.org/10.3390/antibiotics13080768.

Antibiofilm Peptides:

Guillermin Agüero-Chapin, Agostinho Antunes, José R. Mora, Noel Pérez, Ernesto Contreras-Torres, José R. Valdes-Martini, Felix Martinez-Rios, Cesar H. Zambrano, Yovani Marrero-Ponce. Complex Networks Analyses of Antibiofilm Peptides: An Emerging Tool for Next-Generation Antimicrobials’ Discovery. Antibiotics 2023, 12 (4), 747. https://doi.org/10.3390/antibiotics12040747.

Proteolysis Analysis:

Guillermin Agüero-Chapin, Dany Domínguez-Pérez, Yovani Marrero-Ponce, Kevin Castillo-Mendieta, Agostinho Antunes. Unveiling Encrypted Antimicrobial Peptides from Cephalopods’ Salivary Glands: A Proteolysis-Driven Virtual Approach. ACS Omega 2024, 9 (43), 43353-43367. https://doi.org/10.1021/acsomega.4c01959.

Ricardo Alexandre Barroso, Guillermin Agüero-Chapin, Rita Sousa, Yovani Marrero-Ponce, and Agostinho Antunes. Unlocking Antimicrobial Peptides: In Silico Proteolysis and Artificial Intelligence-Driven Discovery from Cnidarian Omics.  Molecules 2025, 30(3), 550. https://doi.org/10.3390/molecules30030550.