Computational approaches for circRNAs prediction and in silico characterization. - Rebolledo, Camilo; Silva, Juan Pablo; Saavedra, Nicolás; Maracaja-Coutinho, Vinicius (Briefings Bioinform., 2023)

Ten quick tips for harnessing the power of ChatGPT in computational biology. - Lubiana, Tiago; Lopes, Rafael; Medeiros, Pedro; Silva, Juan Carlo; Goncalves, Andre Nicolau Aquime; Maracaja-Coutinho, Vinicius; Nakaya, Helder I. (PLoS Comput. Biol., 2023)

RNAmining: A machine learning stand-alone and web server tool for RNA coding potential prediction. - Ramos, Thaís; Galindo, Nilbson R. O.; Arias-Carrasco, Raúl; Silva, Cecília; Maracaja-Coutinho, Vinicius; Rêgo, Thaís Gaudencio do (F1000Research, 2021)

OUTBREAK: A user-friendly georeferencing online tool for disease surveillance. - Arias-Carrasco, Raúl; Giddaluru, Jeevan; Cardozo, Lucas E.; Martins, Felipe; Maracaja-Coutinho, Vinicius; Nakaya, Helder I. (CoRR, 2020)

StructRNAfinder: an automated pipeline and web server for RNA families prediction. - Arias-Carrasco, Raúl; Vásquez-Morán, Yessenia; Nakaya, Helder I.; Maracaja-Coutinho, Vinicius (BMC Bioinform., 2018)

CEMiTool: a Bioconductor package for performing comprehensive modular co-expression analyses. - Russo, Pedro S. T.; Ferreira, Gustavo R.; Cardozo, Lucas E.; Bürger, Matheus C.; Arias-Carrasco, Raúl; Maruyama, Sandra R.; Hirata, Thiago D. C.; Lima, Diógenes S.; Passos, Fernando M.; Fukutani, Kiyoshi F.; Lever, Melissa; Silva, João S.; et al. (BMC Bioinform., 2018)

LeishDB: a database of coding gene annotation and non-coding RNAs in Leishmania braziliensis. - Torres, Felipe; Arias-Carrasco, Raúl; Caris-Maldonado, José C.; Barral, Aldina; Maracaja-Coutinho, Vinicius; Queiroz, Artur T. L. De (Database J. Biol. Databases Curation, 2017)