Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence. - Adriano Barbosa-Silva; Venkata P. Satagopam; Reinhard Schneider 002; José Miguel Ortega (BMC Bioinform., 2008)

Mineração de texto, agrupamento de seqüências e integração de dados para o desenvolvimento da Plant Defense Mechanisms Database. - Adriano Barbosa da Silva (2008)

In Silico Screening for Pathogenesis Related-2 Gene Candidates in VignaUnguiculata Transcriptome. - Ana Carolina Wanderley-Nogueira; Nina da Mota Soares-Cavalcanti; Luis Carlos Belarmino; Adriano Barbosa-Silva; Ederson Akio Kido; Semiramis Jamil Hadad do Monte; Valesca Pandolfi; Tercílio Calsa-Junior; Ana Maria Benko-Iseppon (CIBB, 2009)

MedlineRanker: flexible ranking of biomedical literature. - Jean-Fred Fontaine; Adriano Barbosa-Silva; Martin H. Schaefer 001; Matthew R. Huska; Enrique M. Muro; Miguel A. Andrade-Navarro (Nucleic Acids Res., 2009)

A reference guide for tree analysis and visualization. - Georgios A. Pavlopoulos; Theodoros G. Soldatos; Adriano Barbosa-Silva; Reinhard Schneider 002 (BioData Min., 2010)

LAITOR - Literature Assistant for Identification of Terms co-Occurrences and Relationships. - Adriano Barbosa-Silva; Theodoros G. Soldatos; Ivan L. F. Magalhães; Georgios A. Pavlopoulos; Jean-Fred Fontaine; Miguel A. Andrade-Navarro; Reinhard Schneider 002; José Miguel Ortega (BMC Bioinform., 2010)

PESCADOR, a web-based tool to assist text-mining of biointeractions extracted from PubMed queries. - Adriano Barbosa-Silva; Jean-Fred Fontaine; Elisa R. Donnard; Fernanda Stussi; José Miguel Ortega; Miguel A. Andrade-Navarro (BMC Bioinform., 2011)

Génie: literature-based gene prioritization at multi genomic scale. - Jean-Fred Fontaine; Florian Priller; Adriano Barbosa-Silva; Miguel A. Andrade-Navarro (Nucleic Acids Res., 2011)

Caipirini: using gene sets to rank literature. - Theodoros G. Soldatos; Seán I. O'Donoghue; Venkata P. Satagopam; Adriano Barbosa-Silva; Georgios A. Pavlopoulos; Ana Carolina Wanderley-Nogueira; Nina da Mota Soares-Cavalcanti; Reinhard Schneider 002 (BioData Min., 2012)

uORFdb - a comprehensive literature database on eukaryotic uORF biology. - Klaus Wethmar; Adriano Barbosa-Silva; Miguel A. Andrade-Navarro; Achim Leutz (Nucleic Acids Res., 2014)

Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases. - Venkata P. Satagopam; Wei Gu; Serge Eifes; Piotr Gawron; Marek Ostaszewski; Stephan Gebel; Adriano Barbosa-Silva; Rudi Balling; Reinhard Schneider 002 (Big Data, 2016)

SmartR: an open-source platform for interactive visual analytics for translational research data. - Sascha Herzinger; Wei Gu; Venkata P. Satagopam; Serge Eifes; Kavita Rege; Adriano Barbosa-Silva; Reinhard Schneider 002 (Bioinform., 2017)

Automated Nuclei Segmentation in Dysplastic Histopathological Oral Tissues Using Deep Neural Networks. - Adriano Barbosa-Silva; Alessandro Santana Martins; Leandro Alves Neves; Paulo Rogério de Faria; Thaína A. A. Tosta; Marcelo Zanchetta do Nascimento (CIARP, 2019)

Presenting and sharing clinical data using the eTRIKS Standards Master Tree for tranSMART. - Adriano Barbosa-Silva; Dorina Bratfalean; Wei Gu; Venkata P. Satagopam; Paul Houston; Lauren B. Becnel; Serge Eifes; Fabien Richard; Andreas Tielmann; Sascha Herzinger; Kavita Rege; Rudi Balling; et al. (Bioinform., 2019)

Data and knowledge management in translational research: implementation of the eTRIKS platform for the IMI OncoTrack consortium. - Wei Gu; Reha Yildirimman; Emmanuel Van der Stuyft; Denny Verbeeck; Sascha Herzinger; Venkata P. Satagopam; Adriano Barbosa-Silva; Reinhard Schneider 002; Bodo M. H. Lange; Hans Lehrach; Yike Guo; David Henderson; et al. (BMC Bioinform., 2019)

Segmentation of Oral Epithelial Dysplasias Employing Mask R-CNN and Color Normalization. - Adriano Barbosa-Silva; Dalí F. D. dos Santos; Thaína A. A. Tosta; Alessandro Santana Martins; Leandro Alves Neves; Bruno A. N. Travençolo; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento (BIBM, 2020)

Automated Nuclei Segmentation on Dysplastic Oral Tissues Using CNN. - Dalí F. D. dos Santos; Thaína A. A. Tosta; Adriano Barbosa-Silva; Paulo Rogério de Faria; Bruno A. N. Travençolo; Marcelo Zanchetta do Nascimento (IWSSIP, 2020)

LAITOR4HPC: A text mining pipeline based on HPC for building interaction networks. - Bruna Piereck; Marx Oliveira-Lima; Ana Maria Benko-Iseppon; Sarah Diehl; Reinhard Schneider 002; Ana Christina Brasileiro-Vidal; Adriano Barbosa-Silva (BMC Bioinform., 2020)

A curated, ontology-based, large-scale knowledge graph of artificial intelligence tasks and benchmarks. - Kathrin Blagec; Adriano Barbosa-Silva; Simon Ott; Matthias Samwald (CoRR, 2021)

A Hermite polynomial algorithm for detection of lesions in lymphoma images. - Alessandro Santana Martins; Leandro Alves Neves; Paulo Rogério de Faria; Thaína A. A. Tosta; Leonardo C. Longo; Adriano Barbosa-Silva; Guilherme Freire Roberto; Marcelo Zanchetta do Nascimento (Pattern Anal. Appl., 2021)

Classification of H&E images exploring ensemble learning with two-stage feature selection. - Jaqueline Junko Tenguam; Leonardo Henrique Da Costa Longo; Adriano Barbosa-Silva; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento; Leandro Alves Neves (IWSSIP, 2022)

Assessment of the association of deep features with a polynomial algorithm for automated oral epithelial dysplasia grading. - Adriano Barbosa-Silva; Cléber I. De Oliveira; Danilo Cesar Pereira; Thaína A. A. Tosta; Alessandro Santana Martins; Adriano M. Loyola; Sérgio V. Cardoso; Paulo Rogério de Faria; Leandro Alves Neves; Marcelo Zanchetta do Nascimento (SIBGRAPI, 2022)

Classification of lymphomas images with polynomial strategy: An application with Ridge regularization. - Danilo Cesar Pereira; Leonardo C. Longo; Thaína A. A. Tosta; Alessandro Santana Martins; Adriano Barbosa-Silva; Paulo Rogério de Faria; Leandro Alves Neves; Marcelo Zanchetta do Nascimento (SIBGRAPI, 2022)

LinkExplorer: predicting, explaining and exploring links in large biomedical knowledge graphs. - Simon Ott; Adriano Barbosa-Silva; Matthias Samwald (Bioinform., 2022)

Mapping global dynamics of benchmark creation and saturation in artificial intelligence. - Adriano Barbosa-Silva; Simon Ott; Kathrin Blagec; Jan Brauner; Matthias Samwald (CoRR, 2022)

Computational analysis of histological images from hematoxylin and eosin-stained oral epithelial dysplasia tissue sections. - Adriano Barbosa-Silva; Alessandro Santana Martins; Thaína Aparecida Azevedo Tosta; Leandro Alves Neves; João Paulo Silva Servato; Marcelo Sivieri de Araújo; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento (Expert Syst. Appl., 2022)

Classification of non-Hodgkin lymphomas based on sample entropy signatures. - Guilherme Botazzo Rozendo; Marcelo Zanchetta do Nascimento; Guilherme Freire Roberto; Paulo Rogério de Faria; Adriano Barbosa-Silva; Thaína Aparecida Azevedo Tosta; Leandro Alves Neves (Expert Syst. Appl., 2022)

Sample Entropy Signatures: A new way to interpret SampEn values. - Guilherme Botazzo Rozendo; Marcelo Zanchetta do Nascimento; Guilherme Freire Roberto; Paulo Rogério de Faria; Adriano Barbosa-Silva; Thaína Aparecida Azevedo Tosta; Leandro Alves Neves (Softw. Impacts, 2022)

CNN Ensembles for Nuclei Segmentation on Histological Images of OED. - Adriano Barbosa-Silva; Guilherme Botazzo Rozendo; Thaína A. A. Tosta; Alessandro Santana Martins; Adriano M. Loyola; Sérgio V. Cardoso; Alessandra Lumini; Leandro Alves Neves; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento (CBMS, 2023)

Handcrafted features vs deep-learned features: Hermite Polynomial Classification of Liver Images. - Danilo Cesar Pereira; Leonardo C. Longo; Thaína A. A. Tosta; Alessandro Santana Martins; Adriano Barbosa-Silva; Guilherme Botazzo Rozendo; Guilherme Freire Roberto; Alessandra Lumini; Leandro Alves Neves; Marcelo Zanchetta do Nascimento (CBMS, 2023)

Classification of H&E Images via CNN Models with XAI Approaches, DeepDream Representations and Multiple Classifiers. - Leandro Alves Neves; João Manuel Cardoso Martinez; Leonardo Henrique Da Costa Longo; Guilherme Freire Roberto; Thaína Aparecida Azevedo Tosta; Paulo Rogério de Faria; Adriano M. Loyola; Sérgio V. Cardoso; Adriano Barbosa-Silva; Marcelo Zanchetta do Nascimento; Guilherme Botazzo Rozendo (ICEIS (1), 2023)

Ensemble of Semantic Segmentation Models for Oral Epithelial Dysplasia Images. - Adriano Barbosa-Silva; Thaína A. A. Tosta; Leandro Alves Neves; Alessandro Santana Martins; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento (SIBGRAPI, 2024)

Oral Dysplasia Classification by Using Fractal Representation Images and Convolutional Neural Networks. - Rafael H. de O. Carvalho; Adriano Barbosa-Silva; Alessandro Santana Martins; Sérgio V. Cardoso; Guilherme Freire Roberto; Paulo Rogério de Faria; Adriano M. Loyola; Thaína A. A. Tosta; Leandro Alves Neves; Marcelo Zanchetta do Nascimento (VISIGRAPP (3): VISAPP, 2024)

Investigation of Deep Neural Network Compression Based on Tucker Decomposition for the Classification of Lesions in Cavity Oral. - Vitor B. L. Fernandes; Adriano Barbosa-Silva; Danilo Cesar Pereira; Sérgio V. Cardoso; Paulo Rogério de Faria; Adriano M. Loyola; Thaína A. A. Tosta; Leandro Alves Neves; Marcelo Zanchetta do Nascimento (VISIGRAPP (3): VISAPP, 2024)

Association of Grad-CAM, LIME and Multidimensional Fractal Techniques for the Classification of H&E Images. - Thales R. S. Lopes; Guilherme Freire Roberto; Carlos Soares; Thaína A. A. Tosta; Adriano Barbosa-Silva; Adriano M. Loyola; Sérgio V. Cardoso; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento; Leandro Alves Neves (VISIGRAPP (2): VISAPP, 2024)

Higuchi Fractal Dimension with a multidimensional approach for color images. - Jaqueline Junko Tenguam; Leonardo Henrique Da Costa Longo; Guilherme Freire Roberto; Thaína A. A. Tosta; Adriano Barbosa-Silva; Marcelo Zanchetta do Nascimento; Leandro Alves Neves (Softw. Impacts, 2024)

Classification of Multiple H&E Images via an Ensemble Computational Scheme. - Leonardo Henrique Da Costa Longo; Guilherme Freire Roberto; Thaína A. A. Tosta; Paulo Rogério de Faria; Adriano M. Loyola; Sérgio V. Cardoso; Adriano Barbosa-Silva; Marcelo Zanchetta do Nascimento; Leandro Alves Neves (Entropy, 2024)

Exploring DeepDream and XAI Representations for Classifying Histological Images. - João Manoel Cardoso Martinez; Leandro Alves Neves; Leonardo Henrique Da Costa Longo; Guilherme Botazzo Rozendo; Guilherme Freire Roberto; Thaína Aparecida Azevedo Tosta; Paulo Rogério de Faria; Adriano M. Loyola; Sérgio V. Cardoso; Adriano Barbosa-Silva; Marcelo Zanchetta do Nascimento (SN Comput. Sci., 2024)

CNN Ensembles for Nuclei Instance Segmentation in OED Histological Images. - Adriano Barbosa-Silva; Jose E. B. Apumayta; Thaína A. A. Tosta; Alessandro Santana Martins; Domingos Lucas Latorre de Oliveira; Leandro Alves Neves; Paulo Rogério de Faria; Marcelo Zanchetta do Nascimento (CBMS, 2025)

Nuclear Segmentation in Histological Images Using Multiple Attention System Mixing. - Gabriel G. Crepaldi; Domingos Lucas Latorre de Oliveira; Thaína A. A. Tosta; Leandro Alves Neves; Adriano Barbosa-Silva; Alessandro Santana Martins; Marcelo Zanchetta do Nascimento (CBMS, 2025)

Evaluation of fractal descriptors, deep features and XAI representations with LASSO-regularized Hermite polynomial classifier for H&E histological image classification. - Danilo Cesar Pereira; Adriano Barbosa-Silva; Leonardo Henrique Da Costa Longo; Adriano M. Loyola; Sérgio V. Cardoso; Paulo Rogério de Faria; Thaína A. A. Tosta; Leandro Alves Neves; Alessandro Santana Martins; Marcelo Zanchetta do Nascimento (Biomed. Signal Process. Control., 2026)