Short interrupted palindromes on the extragenic DNA of Escherichia coli K-12, Haemophilus influenzae and Neisseria meningitidis. - Ana Tereza Ribeiro de Vasconcelos; Marco A. Grivet Mattoso Maia; Darcy F. de Almeida (Bioinform., 2000)

A Tool for Automatic Genome Annotation. - Ana Tereza Ribeiro de Vasconcelos; L. Gonzaga; Rangel C. Souza; D. Q. Mendes; Roger F. C. Paixão; R. Kersanach; M. Oliveira; S. M. Martins; Andrew J. G. Simpson (German Conference on Bioinformatics, 2001)

Procsimo: uma Ferramenta de Procura de Similaridade entre Operons. - Carlos Azevedo; Alexandre Plastino 001; Ana Tereza Ribeiro de Vasconcelos (WOB, 2003)

A System for Automated Bacterial (genome) Integrated Annotation - SABIA. - Luiz G. P. Almeida; Roger F. C. Paixão; Rangel C. Souza; Gisele C. da Costa; Frank J. A. Barrientos; Marcelo Trindade dos Santos; Darcy F. de Almeida; Ana Tereza Ribeiro de Vasconcelos (Bioinform., 2004)

Complementing computationally predicted regulatory sites in Tractor_DB using a pattern matching approach. - Marylens Hernández Guía; Abel González Pérez; Vladimir Espinosa Angarica; Ana Tereza Ribeiro de Vasconcelos; Julio Collado-Vides (Silico Biol., 2004)

Web Tools for Molecular Biological Data Analysis. - Denise Fukumi Tsunoda; Heitor Silvério Lopes; Ana Tereza Ribeiro de Vasconcelos (Encyclopedia of Information Science and Technology (V), 2005)

MamMiBase: a mitochondrial genome database for mammalian phylogenetic studies. - Ana Tereza Ribeiro de Vasconcelos; Ana Carolina R. Guimarães; Carlos Henrique M. Castelletti; Célia S. Caruso; Cristina Ribeiro 003; Fabiano Yokaichiya; Geraldo R. G. Armôa; Gislaine da Silva P. Pereira; Israel T. da Silva; Carlos G. Schrago; Adélia L. V. Fernandes; Aline R. da Silveira; et al. (Bioinform., 2005)

TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomes. - Abel D. González; Vladimir Espinosa Angarica; Ana Tereza Ribeiro de Vasconcelos; Ernesto Pérez-Rueda; Julio Collado-Vides (Nucleic Acids Res., 2005)

Automated smoother for the numerical decoupling of dynamics models. - Marco Vilela; Carlos Cristiano H. Borges; Susana Vinga; Ana Tereza Ribeiro de Vasconcelos; Helena Santos; Eberhard O. Voit; Jonas S. Almeida (BMC Bioinform., 2007)

Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes. - Abel González Pérez; Vladimir Espinosa Angarica; Ana Tereza Ribeiro de Vasconcelos; Julio Collado-Vides (Nucleic Acids Res., 2007)

Application of Genetic Algorithms to the Genetic Regulation Problem. - Maria Fernanda B. Wanderley; João C. P. da Silva; Carlos Cristiano H. Borges; Ana Tereza Ribeiro de Vasconcelos (BSB, 2008)

Prediction of TF target sites based on atomistic models of protein-DNA complexes. - Vladimir Espinosa Angarica; Abel González Pérez; Ana Tereza Ribeiro de Vasconcelos; Julio Collado-Vides; Bruno Contreras-Moreira (BMC Bioinform., 2008)

Structural descriptor database: a new tool for sequence-based functional site prediction. - Juliana S. Bernardes; Jorge H. Fernandez; Ana Tereza Ribeiro de Vasconcelos (BMC Bioinform., 2008)

Parameter optimization in S-system models. - Marco Vilela; I-Chun Chou; Susana Vinga; Ana Tereza Ribeiro de Vasconcelos; Eberhard O. Voit; Jonas S. Almeida (BMC Syst. Biol., 2008)

Conservation of key members in the course of the evolution of the insulin signaling pathway. - Janet Piñero González; Olimpia Carrillo Farnés; Ana Tereza Ribeiro de Vasconcelos; Abel González Pérez (Biosyst., 2009)

DASMiner: discovering and integrating data from DAS sources. - Diogo F. Veiga; Helena F. Deus; Caner Akdemir; Ana Tereza Ribeiro de Vasconcelos; Jonas S. Almeida (BMC Syst. Biol., 2009)

CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens. - Luiz Gonzaga Almeida; Noboru J. Sakabe; Alice R. de Oliveira; Maria Cristina C. Silva; Alex S. Mundstein; Tzeela Cohen; Yao-Tseng Chen; Ramon Chua; Sita Gurung; Sacha Gnjatic; Achim A. Jungbluth; Otavia L. Caballero; et al. (Nucleic Acids Res., 2009)

A Simple and Fast Term Selection Procedure for Text Clustering. - Luiz G. P. Almeida; Ana Tereza Ribeiro de Vasconcelos; Marco A. G. Maia (Intelligent Text Categorization and Clustering, 2009)

AGUIA: autonomous graphical user interface assembly for clinical trials semantic data services. - Miria C. Correa; Helena F. Deus; Ana Tereza Ribeiro de Vasconcelos; Yuki Hayashi; Jaffer A. Ajani; Srikrishna V. Patnana; Jonas S. Almeida (BMC Medical Informatics Decis. Mak., 2010)

Laminin database: a tool to retrieve high-throughput and curated data for studies on laminins. - Daiane C. F. Golbert; Leandra Linhares-Lacerda; Luiz Gonzaga Almeida; Eliane Correa-de-Santana; Alice R. de Oliveira; Alex S. Mundstein; Wilson Savino; Ana T. R. de Vasconcelos (Nucleic Acids Res., 2011)

Laminin-database v.2.0: an update on laminins in health and neuromuscular disorders. - Daiane C. F. Golbert; Eliane Santana-van-Vliet; Alex S. Mundstein; Vicente Calfo; Wilson Savino; Ana T. R. de Vasconcelos (Nucleic Acids Res., 2014)

BioSurfDB: knowledge and algorithms to support biosurfactants and biodegradation studies. - Jorge S. Oliveira; Wydemberg Araújo; Ana Isabela Lopes Sales; Alaine de Brito Guerra; Sinara Carla da Silva Araújo; Ana Tereza Ribeiro de Vasconcelos; Lucymara F. Agnez-Lima; Ana Teresa Freitas (Database J. Biol. Databases Curation, 2015)

Mirnacle: machine learning with SMOTE and random forest for improving selectivity in pre-miRNA ab initio prediction. - Yuri Bento Marques; Alcione de Paiva Oliveira; Ana Tereza Ribeiro de Vasconcelos; Fabio Ribeiro Cerqueira (BMC Bioinform., 2016)

Erratum to: Mirnacle: machine learning with SMOTE and random forest for improving selectivity in pre-miRNA ab initio prediction. - Yuri Bento Marques; Alcione de Paiva Oliveira; Ana Tereza Ribeiro de Vasconcelos; Fabio Ribeiro Cerqueira (BMC Bioinform., 2017)

BioWorkbench: A High-Performance Framework for Managing and Analyzing Bioinformatics Experiments. - Maria Luiza Mondelli; Thiago Magalhães; Guilherme Loss; Michael Wilde; Ian T. Foster; Marta Mattoso; Daniel S. Katz; Helio J. C. Barbosa; Ana Tereza Ribeiro de Vasconcelos; Kary A. C. S. Ocaña; Luiz M. R. Gadelha Jr. (CoRR, 2018)

Towards a Science Gateway for Bioinformatics: Experiences in the Brazilian System of High Performance Computing. - Kary Ann del Carmen Ocaña Gautherot; Marcelo Galheigo; Carla Osthoff; Luiz M. R. Gadelha Jr.; Antônio Tadeu A. Gomes; Daniel de Oliveira 001; Fábio Porto 001; Ana Tereza Ribeiro de Vasconcelos (CCGRID, 2019)

OntoPPI: Towards Data Formalization on the Prediction of Protein Interactions. - Yasmmin Cortes Martins; Maria Cláudia Cavalcanti; Luis Willian Pacheco Arge; Artur Ziviani; Ana Tereza Ribeiro de Vasconcelos (MTSR, 2019)

OCCAM: prediction of small ORFs in bacterial genomes by means of a target-decoy database approach and machine learning techniques. - Fabio Ribeiro Cerqueira; Ana Tereza Ribeiro de Vasconcelos (Database J. Biol. Databases Curation, 2020)

BioinfoPortal: A scientific gateway for integrating bioinformatics applications on the Brazilian national high-performance computing network. - Kary A. C. S. Ocaña; Marcelo Galheigo; Carla Osthoff; Luiz M. R. Gadelha Jr.; Fábio Porto 001; Antônio Tadeu A. Gomes; Daniel de Oliveira 001; Ana Tereza Ribeiro de Vasconcelos (Future Gener. Comput. Syst., 2020)

Large-Scale Protein Interactions Prediction by Multiple Evidence Analysis Associated With an In-Silico Curation Strategy. - Yasmmin Cortes Martins; Artur Ziviani; Marisa Fabiana Nicolás; Ana Tereza Ribeiro de Vasconcelos (Frontiers Bioinform., 2021)

A model of dopamine and serotonin-kynurenine metabolism in cortisolemia: Implications for depression. - Felipe Dalvi-Garcia; Luís L. Fonseca; Ana Tereza Ribeiro de Vasconcelos; Cecilia Hedin-Pereira; Eberhard O. Voit (PLoS Comput. Biol., 2021)

Genomic Perspectives on the Emerging SARS-CoV-2 Omicron Variant. - Wentai Ma; Jing Yang; Haoyi Fu; Chao Su; Caixia Yu; Qihui Wang; Ana Tereza Ribeiro de Vasconcelos; Georgii A. Bazykin; Yiming Bao; Mingkun Li (Genom. Proteom. Bioinform., 2022)

Multi-layered transcriptomic analysis reveals a pivotal role of FMR1 and other developmental genes in Alzheimer's disease-associated brain ceRNA network. - Rafael Mina Piergiorge; Ronaldo da Silva Francisco Junior; Ana Tereza Ribeiro de Vasconcelos; Cíntia Barros Santos-Rebouças (Comput. Biol. Medicine, 2023)