Zerg: A Very Fast BLAST Parser Library. - Apuã C. M. Paquola; Abimael A. Machado; Eduardo M. Reis; Aline Maria da Silva; Sergio Verjovski-Almeida (Bioinform., 2003)

ESTWeb: bioinformatics services for EST sequencing projects. - Apuã C. M. Paquola; Milton Y. Nishyiama Jr.; Eduardo M. Reis; Aline Maria da Silva; Sergio Verjovski-Almeida (Bioinform., 2003)

An Improvement Over the CODA Filterfor LC-MS Analysis. - Daniel Rech; Edmundo Grisard; Susana Linskens; Apuã C. M. Paquola; Antônio Augusto Fröhlich; Sirlei Daffre (WOB, 2004)

dRFEtools: dynamic recursive feature elimination for omics. - Kynon J. M. Benjamin; Tarun Katipalli; Apuã C. M. Paquola (Bioinform., 2023)