publications

publications by categories in reversed chronological order. generated by jekyll-scholar.

2024

  1. BMC Bioinf.
    HIHISIV: a database of gene expression in HIV and SIV host immune response
    Raquel L. Costa, Luiz Gadelha, Mirela D’arc, and 5 more authors
    BMC Bioinformatics, Mar 2024
  2. Metabolites
    Implementation of FAIR Practices in Computational Metabolomics Workflows—A Case Study
    Mahnoor Zulfiqar, Michael R. Crusoe, Birgitta König-Ries, and 3 more authors
    Metabolites, Feb 2024
  3. IWSG
    The GHGA Archive: Selected Updates
    Jens Krüger, Jordy Didier Orellana Figueroa, Zehra Hazal Sezer, and 6 more authors
    In 16th International Workshop on Science Gateways (IWSG2024), Sep 2024
    Publisher: Zenodo

2023

  1. J. Cheminf.
    MAW: the reproducible Metabolome Annotation Workflow for untargeted tandem mass spectrometry
    Mahnoor Zulfiqar, Luiz Gadelha, Christoph Steinbeck, and 2 more authors
    Journal of Cheminformatics, Mar 2023
  2. CoRDI
    German Human Genome-Phenome Archive in an International Context: Toward a Federated Infrastructure for Managing and Analyzing Genomics and Health Data
    Luiz Gadelha, and Jan Eufinger
    Proceedings of the Conference on Research Data Infrastructure, Sep 2023

2022

  1. eScience
    Toward a Framework for Integrative, FAIR, and Reproducible Management of Data on the Dynamic Balance of Microbial Communities
    Luiz Gadelha, Martin Hohmuth, Mahnoor Zulfiqar, and 5 more authors
    In 2022 IEEE 18th International Conference on e-Science (e-Science), Oct 2022
  2. CARLA
    ParslRNA-Seq: An Efficient and Scalable RNAseq Analysis Workflow for Studies of Differentiated Gene Expression
    Kary Ocaña, Lucas Cruz, Micaella Coelho, and 8 more authors
    In High Performance Computing, Oct 2022
    Series Title: Communications in Computer and Information Science
  3. Comp. y Sis.
    Parallel Performance and I/O Profiling of HPC RNA-Seq Applications
    Lucas Cruz, Micaella Coelho, Marcelo Galheigo, and 7 more authors
    Computación y Sistemas, Dec 2022
  4. Biodiv. Inf.
    ENM2020: A Free Online Course and Set of Resources on Modeling Species’ Niches and Distributions | Biodiversity Informatics
    A. Townsend Peterson, Matthew Aiello-Lammens, Giuseppe Amatulli, and 41 more authors
    Biodiversity Informatics, Dec 2022

2021

  1. eScience
    Capturing and Semantically Describing Provenance to Tell the Story of R Scripts
    Maria Luiza Mondelli, Sheeba Samuel, Birgitta Konig-Ries, and 1 more author
    In 2021 IEEE 17th International Conference on eScience (eScience), Sep 2021
  2. WIREs DMKD
    A survey of biodiversity informatics: Concepts, practices, and challenges
    Luiz Gadelha, Pedro C. Siracusa, Eduardo Couto Dalcin, and 11 more authors
    Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery, Nov 2021

2020

  1. Gestão de Dados de Biotecnologia Marinha
    Luiz Gadelha
    In Biotecnologia Marinha, Nov 2020
  2. Sci. Rep.
    New perspectives on analysing data from biological collections based on social network analytics
    Pedro C. Siracusa, Luiz Gadelha, and Artur Ziviani
    Scientific Reports, Dec 2020
  3. FGCS
    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, and 5 more authors
    Future Generation Computer Systems, Jun 2020

2019

  1. ER Workshops
    Exploring Reproducibility and FAIR Principles in Data Science Using Ecological Niche Modeling as a Case Study
    Maria Luiza Mondelli, A. Townsend Peterson, and Luiz Gadelha
    In Advances in Conceptual Modeling. ER 2019. Lecture Notes in Computer Science, vol. 11787, Jun 2019
  2. iSys
    O Que os Países Escutam: Analisando a Rede de Gêneros Musicais ao Redor do Mundo
    Maria Luiza Mondelli, Luiz Gadelha, and Artur Ziviani
    iSys - Revista Brasileira de Sistemas de Informação, Jun 2019
  3. CCGrid
    Towards a Science Gateway for Bioinformatics: Experiences in the Brazilian System of High Performance Computing
    Kary Ocana, Marcelo Galheigo, Carla Osthoff, and 5 more authors
    In 2019 19th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (CCGRID), May 2019
  4. JHIR
    SISS-Geo: Leveraging Citizen Science to Monitor Wildlife Health Risks in Brazil
    Marcia Chame, Helio J. C. Barbosa, Luiz Gadelha, and 3 more authors
    Journal of Healthcare Informatics Research, Dec 2019

2018

  1. BrasNAM
    O Que os Países Escutam: Analisando a Rede de Gêneros Musicais ao Redor do Mundo
    Maria Luiza Mondelli, Luiz Gadelha, and Artur Ziviani
    In Anais do VII Brazilian Workshop on Social Network Analysis and Mining (BrasNAM 2018), Dec 2018
  2. PeerJ
    BioWorkbench: a high-performance framework for managing and analyzing bioinformatics experiments
    Maria Luiza Mondelli, Thiago Magalhães, Guilherme Loss, and 8 more authors
    PeerJ, Aug 2018
  3. FMS
    Marine Biotechnology in Brazil: Recent Developments and Its Potential for Innovation
    Fabiano Thompson, Ricardo Krüger, Cristiane C. Thompson, and 18 more authors
    Frontiers in Marine Science, Jul 2018
  4. CARLA
    Model-R: A Framework for Scalable and Reproducible Ecological Niche Modeling
    Andrea Sánchez-Tapia, Marinez Ferreira Siqueira, Rafael Oliveira Lima, and 5 more authors
    In High Performance Computing: 4th Latin American Conference, CARLA 2017. Communications in Computer and Information Science, vol. 796, Jul 2018

2017

  1. PeerJ
    GeNNet: an integrated platform for unifying scientific workflows and graph databases for transcriptome data analysis
    Raquel L. Costa, Luiz Gadelha, Marcelo Ribeiro-Alves, and 1 more author
    PeerJ, Jul 2017

2016

  1. SBBD Demo
    HPSW-Prof: A Provenance-Based Framework for Profiling High Performance Scientific Workflows
    Maria Luiza Mondelli, Matheus Tonelli Souza, Kary Ocaña, and 2 more authors
    In Proc. of Satellite Events of the 31st Brazilian Symposium on Databases (SBBD 2016), Jul 2016
  2. BreSci
    Integrating Scientific Workflows with Scientific Gateways: A Bioinformatics Experiment in the Brazilian National High-Performance Computing Network
    Maria Luiza Mondelli, Marcelo Galheigo, Vivian Medeiros, and 4 more authors
    In X Brazilian e-Science Workshop. Anais do XXXVI Congresso da Sociedade Brasileira de Computação, Jul 2016

2015

  1. Database
    BaMBa: towards the integrated management of Brazilian marine environmental data
    Pedro Milet Meirelles, Luiz Gadelha, Ronaldo Bastos Francini-Filho, and 17 more authors
    Database, Jan 2015
  2. PLOS ONE
    Baseline Assessment of Mesophotic Reefs of the Vitória-Trindade Seamount Chain Based on Water Quality, Microbial Diversity, Benthic Cover and Fish Biomass Data
    Pedro M. Meirelles, Gilberto M. Amado-Filho, Guilherme H. Pereira-Filho, and 18 more authors
    PLOS ONE, Jun 2015
  3. IPAW
    Applying Provenance to Protect Attribution in Distributed Computational Scientific Experiments
    Luiz Gadelha, and Marta Mattoso
    In Provenance and Annotation of Data and Processes. IPAW 2014. Lecture Notes in Computer Science, vol. 8628, Jun 2015

2014

  1. Data Sci. J.
    Conceptual View Representation of the Brazilian Information System on Antarctic Environmental Research
    R. Zorrilla, M. Poltosi, L. Gadelha, and 7 more authors
    Data Science Journal, Oct 2014
  2. BreSci
    SiBBr: Uma Infraestrutura para Coleta, Integração e Análise de Dados sobre a Biodiversidade Brasileira
    Luiz Gadelha, Pedro Guimarães, Ana Maria Moura, and 9 more authors
    In VIII Brazilian e-Science Workshop (BRESCI 2014). Proc. XXXIV Congress of the Brazilian Computer Society, Oct 2014

2013

  1. EDBT/ICDT WS
    Provenance traces of the Swift parallel scripting system
    Luiz Gadelha, Michael Wilde, Marta Mattoso, and 1 more author
    In Proceedings of the Joint EDBT/ICDT 2013 Workshops on - EDBT ’13, Mar 2013

2012

  1. PESC-UFRJ
    Gerência de Proveniência em Workflows Científicos Paralelos e Distribuídos
    L. Gadelha
    Universidade Federal do Rio de Janeiro, Mar 2012
  2. ISEI
    Scalable and Provenance-Enabled Scientific Workflows for Predicting Distribution of Species.
    L. Gadelha, S. Stanzani, P. Corrêa, and 4 more authors
    In Proc. 8th International Conference on Ecological Informatics (ISEI 2012), Mar 2012
  3. DPD
    MTCProv: a practical provenance query framework for many-task scientific computing
    Luiz Gadelha, Michael Wilde, Marta Mattoso, and 1 more author
    Distributed and Parallel Databases, Aug 2012

2011

  1. TaPP
    Provenance Query Patterns for Many-Task Scientific Computing
    L. Gadelha, M. Mattoso, M. Wilde, and 1 more author
    In 3rd USENIX Workshop on the Theory and Practice of Provenance (TaPP 2011), Aug 2011
  2. HPCDB
    Exploring provenance in high performance scientific computing
    Luiz Gadelha, Michael Wilde, Marta Mattoso, and 1 more author
    In Proc. of the 1st Annual Workshop on High Performance Computing meets Databases - HPCDB ’11, Nov 2011
  3. FGCS
    Provenance management in Swift
    Luiz Gadelha, Ben Clifford, Marta Mattoso, and 2 more authors
    Future Generation Computer Systems, Jun 2011

2010

  1. IPAW
    Towards a Threat Model for Provenance in e-Science
    L. Gadelha, M. Mattoso, M. Wilde, and 1 more author
    In Provenance and Annotation of Data and Processes - The Third Provenance and Annotation Workshop (IPAW 2010), Jun 2010
  2. ANL-TR
    Provenance Management in Swift with Implementation Details
    L. Gadelha, B. Clifford, M. Mattoso, and 2 more authors
    Jun 2010

2008

  1. eScience
    Kairos: An Architecture for Securing Authorship and Temporal Information of Provenance Data in Grid-Enabled Workflow Management Systems
    Luiz Gadelha, and Marta Mattoso
    In 2008 IEEE Fourth International Conference on eScience, Dec 2008
  2. CCGrid
    A Lightweight Middleware Monitor for Distributed Scientific Workflows
    Sergio Manuel Serra Cruz, Fabricio Nogueira Silva, Luiz Gadelha, and 3 more authors
    In 2008 Eighth IEEE International Symposium on Cluster Computing and the Grid (CCGRID), May 2008

2007

  1. MGC
    On the management of grid credentials
    Luiz Gadelha, and Bruno Schulze
    In Proceedings of the 5th international workshop on Middleware for grid computing held at the ACM/IFIP/USENIX 8th International Middleware Conference - MGC ’07, Nov 2007

2006

  1. WCGA
    Specification of a MyProxy Plugin for Mozilla
    L. Gadelha
    In Proc. IV Workshop de Computação em Grid e Aplicações (WCGA 2006), Nov 2006

2001

  1. SCCC
    An efficient strategy for word-cycle completion in finitely presented groups
    L. Gadelha, and M. Ayala-Rincon
    In SCCC 2001. 21st International Conference of the Chilean Computer Science Society, Nov 2001

1998

  1. Revista SCCC
    Some Applications of (Semi-)Decision Algorithms for Presburger Arithmetic in Automated Deduction based on Rewriting Techniques
    Luiz Gadelha, and Mauricio Ayala-Rincón
    La Revista de La Sociedad Chilena de Ciencia de La Computación, Nov 1998

1997

  1. CLEI
    Applications of Decision Algorithms for Presburger Arithmetic in Rewrite Automated Deduction
    L. Gadelha, and M. Ayala-Rincón
    In Proc. XXIII Latin American Conference on Informatics (CLEI), Nov 1997