Personal information

Bioinformatics
Brazil

Activities

Employment (2)

Universidade Federal do Rio Grande: Rio Grande, RS, BR

2010-09-15 to present | Lecturer (C3)
Employment
Source: Self-asserted source
Karina S. Machado

Inria Centre de Recherche Grenoble Rhone-Alpes: Grenoble, Rhône-Alpes, FR

2018-10-26 to 2019-10-10 | Visiting Professor (NANO-D)
Employment
Source: Self-asserted source
Karina S. Machado

Education and qualifications (2)

Pontifícia Universidade Católica do Rio Grande do Sul: Porto Alegre, RS, BR

2007-04-01 to 2011-03-31 | PhD (Computer Science)
Education
Source: Self-asserted source
Karina S. Machado

Pontifícia Universidade Católica do Rio Grande do Sul: Porto Alegre, RS, BR

2005-03-01 to 2007-03-30 | Master (Computer Science)
Education
Source: Self-asserted source
Karina S. Machado

Works (40)

Feature Selection Investigation in Machine Learning Docking Scoring Functions

2023 | Book chapter
Contributors: Maurício Dorneles Caldeira Balboni; Oscar Emilio Arrua; Adriano V. Werhli; Karina dos Santos Machado
Source: check_circle
Crossref

A Non Exhaustive Search of Exhaustiveness

2022 | Book chapter
Contributors: Letícia Kristian Silva Cecotti; Maurício Dorneles Caldeira Balboni; Oscar Emilio Arrúa Arce; Karina dos Santos Machado; Adriano Velasque Werhli
Source: check_circle
Crossref

Search for Zinc Complexes with High Affinity in Pyrazinamidase from Mycobacterium Tuberculosis Resistant to Pyrazinamide

2022 | Book chapter
Contributors: Jesus Antonio Alvarado-Huayhuaz; Daniel Alonso Talaverano-Rojas; Reneé Isabel Huamán Quispe; Maurício Dorneles Caldeira Balboni; Oscar Emilio Arrúa Arce; Adriano Velasque Werhli; Karina dos Santos Machado; Ana Cecilia Valderrama-Negrón
Source: check_circle
Crossref

Ensemble of Protein Stability upon Point Mutation Predictors

2021 | Book chapter
Contributors: Eduardo Kenji Hasegawa de Freitas; Alex Dias Camargo; Maurício Balboni; Adriano V. Werhli; Karina dos Santos Machado
Source: check_circle
Crossref

KORP-PL: a coarse-grained knowledge-based scoring function for protein–ligand interactions

Bioinformatics
2021-05-17 | Journal article
Contributors: Maria Kadukova; Karina dos Santos Machado; Pablo Chacón; Sergei Grudinin; Arne Elofsson
Source: check_circle
Crossref

Graphene oxide and GST-omega enzyme: An interaction that affects arsenic metabolism in the shrimp Litopenaeus vannamei

Science of the Total Environment
2020 | Journal article
EID:

2-s2.0-85079103942

Contributors: Josende, M.E.; Nunes, S.M.; de Oliveira Lobato, R.; González-Durruthy, M.; Kist, L.W.; Bogo, M.R.; Wasielesky, W.; Sahoo, S.; Nascimento, J.P.; Furtado, C.A. et al.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

In Vitro Effects of 2-{4-[Methylthio(methylsulfonyl)]phenyl}-3-substitutedthiazolidin-4-ones on the Acetylcholinesterase Activity in Rat Brain and Lymphocytes: Isoform Selectivity, Kinetic Analysis, and Molecular Docking

Neurochemical Research
2020 | Journal article
EID:

2-s2.0-85076731114

Contributors: da Silva, D.S.; Soares, M.S.P.; Martini, F.; Pesarico, A.P.; de Mattos, B.S.; de Souza, A.A.; da Silva, C.E.H.; Scaini, J.L.R.; Machado, K.S.; Wayne Nogueira, C. et al.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A computational method to propose mutations in enzymes based on structural signature variation (SSV)

International Journal of Molecular Sciences
2019 | Journal article
EID:

2-s2.0-85060134282

Contributors: Mariano, D.C.B.; Santos, L.H.; Machado, K.S.; Werhli, A.V.; de Lima, L.H.F.; Melo-Minardi, R.C.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Computational MitoTarget Scanning Based on Topological Vacancies of Single-Walled Carbon Nanotubes with the Human Mitochondrial Voltage-Dependent Anion Channel (hVDAC1)

Chemical Research in Toxicology
2019 | Journal article
EID:

2-s2.0-85064445169

Contributors: González-Durruthy, M.; Monserrat, J.M.; Viera De Oliveira, P.; Fagan, S.B.; Werhli, A.V.; Machado, K.; Melo, A.; González-Díaz, H.; Concu, R.; Cordeiro, M.N.D.S.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Molecular modelling and competitive inhibition of a Mycobacterium tuberculosis multidrug-resistance efflux pump

Journal of Molecular Graphics and Modelling
2019 | Journal article
EID:

2-s2.0-85057736093

Contributors: Scaini, J.L.R.; Camargo, A.D.; Seus, V.R.; von Groll, A.; Werhli, A.V.; da Silva, P.E.A.; Machado, K.D.S.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

C-phycocyanin to overcome the multidrug resistance phenotype in human erythroleukemias with or without interaction with ABC transporters

Biomedicine and Pharmacotherapy
2018 | Journal article
EID:

2-s2.0-85049353277

Contributors: Fernandes e Silva, E.; Figueira, F.S.; Cañedo, A.D.; Machado, K.S.; Salgado, M.T.S.F.; Silva, T.K.; Wagner, E.F.; Mattozo, F.H.; Lima, É.A.; Sales-Neto, J.M. et al.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Cytoprotection of lipoic acid against toxicity induced by saxitoxin in hippocampal cell line HT-22 through in silico modeling and in vitro assays

Toxicology
2018 | Journal article
EID:

2-s2.0-85034609334

Contributors: Ramos, P.; Schmitz, M.; Gama, S.; Portantiolo, A.; Durruthy, M.G.; de Souza Votto, A.P.; Cornetet, L.R.; dos Santos Machado, K.; Werhli, A.; Tonel, M.Z. et al.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A study on the relationship between internal and external validity indices applied to partitioning and density-based clustering algorithms

ICEIS 2017 - Proceedings of the 19th International Conference on Enterprise Information Systems
2017 | Conference paper
EID:

2-s2.0-85023186161

Contributors: Tomasini, C.; Borges, E.N.; Machado, K.; Emmendorfer, L.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Characterization of glucose-tolerant β-glucosidases used in biofuel production under the bioinformatics perspective: A systematic review

Genetics and Molecular Research
2017 | Journal article
EID:

2-s2.0-85028347565

Contributors: Mariano, D.C.B.; Leite, C.; Santos, L.H.S.; Marins, L.F.; Machado, K.S.; Werhli, A.V.; Lima, L.H.F.; De Melo-Minardi, R.C.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Decrypting Strong and Weak Single-Walled Carbon Nanotubes Interactions with Mitochondrial Voltage-Dependent Anion Channels Using Molecular Docking and Perturbation Theory

Scientific Reports
2017 | Journal article
EID:

2-s2.0-85031774542

Contributors: González-Durruthy, M.; Werhli, A.V.; Seus, V.; Machado, K.S.; Pazos, A.; Munteanu, C.R.; González-Díaz, H.; Monserrat, J.M.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

In vitro and in silico analysis of the efficiency of tetrahydropyridines as drug efflux inhibitors in Escherichia coli

International Journal of Antimicrobial Agents
2017 | Journal article
EID:

2-s2.0-85015598829

Contributors: Silva, L.; Carrion, L.L.; von Groll, A.; Costa, S.S.; Junqueira, E.; Ramos, D.F.; Cantos, J.; Seus, V.R.; Couto, I.; Fernandes, L.D.S. et al.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Inference of regulatory networks with MCMC sampler guided by mutual information

Proceedings of the ACM Symposium on Applied Computing
2017 | Conference paper
EID:

2-s2.0-85020942575

Contributors: Barreto, N.M.; Machado, K.S.; Werhli, A.V.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Text Messaging (SMS) Helping Cancer Care in Patients Undergoing Chemotherapy Treatment: a Pilot Study

Journal of Medical Systems
2017 | Journal article
EID:

2-s2.0-85030839067

Contributors: Rico, T.M.; dos Santos Machado, K.; Fernandes, V.P.; Madruga, S.W.; Noguez, P.T.; Barcelos, C.R.G.; Santin, M.M.; Petrarca, C.R.; Dumith, S.C.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A framework for virtual screening

Proceedings of the ACM Symposium on Applied Computing
2016 | Conference paper
EID:

2-s2.0-84975789648

Contributors: Seus, V.R.; Da Silva, P.E.A.; Silva, L.; Werhli, A.V.; Gomes, J.; Machado, K.S.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A methodology for selecting the most suitable cluster validation internal indices

Proceedings of the ACM Symposium on Applied Computing
2016 | Conference paper
EID:

2-s2.0-84975849793

Contributors: Tomasini, C.; Borges, E.N.; Emmendorfer, L.; Machado, K.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Contacts deduplication in mobile devices using textual similarity and machine learning,Deduplicação de contatos em dispositivos móveis utilizando similaridade textual e aprendizado de máquina

SBSI 2016 - 12th Brazilian Symposium on Information Systems: Information Systems in the Cloud Computing Era, Proceedings
2016 | Conference paper
EID:

2-s2.0-85040361014

Contributors: Machado, R.F.; Pinheiro, R.F.; Machado, K.S.; Borges, E.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Predicting the binding properties of single walled carbon nanotubes (SWCNT) with an ADP/ATP mitochondrial carrier using molecular docking, chemoinformatics, and nano-QSBR perturbation theory

RSC Advances
2016 | Journal article
EID:

2-s2.0-84976427840

Contributors: González-Durruthy, M.; Werhli, A.V.; Cornetet, L.; Machado, K.S.; González-Díaz, H.; Wasiliesky, W.; Ruas, C.P.; Gelesky, M.A.; Monserrat, J.M.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Inference of regulatory networks with a convergence improved MCMC sampler

BMC Bioinformatics
2015 | Journal article
EID:

2-s2.0-84959931446

Contributors: Agostinho, N.B.; Machado, K.S.; Werhli, A.V.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

An infrastructure to mine molecular descriptors for ligand selection on virtual screening

BioMed Research International
2014 | Journal article
EID:

2-s2.0-84900001854

Contributors: Seus, V.R.; Perazzo, G.X.; Winck, A.T.; Werhli, A.V.; Machado, K.S.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Estimation of parameters of mycobacterium tuberculosis Growth: A multi-agent-based simulation approach

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2014 | Book
EID:

2-s2.0-84921631399

Contributors: Werlang, P.; Fagundes, M.Q.; Adamatti, D.F.; Machado, K.S.; von Groll, A.; da Silva, P.E.A.; Werhli, A.V.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Multi-agent-based simulation of mycobacterium tuberculosis growth

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2014 | Book
EID:

2-s2.0-84958536825

Contributors: Werlang, P.; Fagundes, M.Q.; Adamatti, D.F.; Machado, K.S.; Von Groll, A.; Da Silva, P.E.A.; Werhli, A.V.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A data warehouse as an infrastructure to mine molecular descriptors for virtual screening

Proceedings of the ACM Symposium on Applied Computing
2013 | Conference paper
EID:

2-s2.0-84877941188

Contributors: Perazzo, G.X.; Winck, A.T.; Machado, K.S.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Context-based preprocessing of molecular docking data

BMC Genomics
2013 | Journal article
EID:

2-s2.0-84906092148

Contributors: Winck, A.T.; Machado, K.S.; de Souza, O.N.; Ruiz, D.D.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Parallel algorithm for the HP protein folding problem

Proceedings - 2013 Workshop-School on Theoretical Computer Science, WEIT 2013
2013 | Conference paper
EID:

2-s2.0-84899107428

Contributors: Santos, M.M.D.; Goulart, M.G.; Gelatti, G.J.; Machado, K.S.; Werhli, A.V.; Mendizabal, O.M.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

A comparative analysis of public ligand databases based on molecular descriptors

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2012 | Book
EID:

2-s2.0-84865606938

Contributors: Winck, A.T.; Quevedo, C.V.; Machado, K.S.; De Souza, O.N.; Ruiz, D.D.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Automatic design of decision-tree induction algorithms tailored to flexible-receptor docking data

BMC Bioinformatics
2012 | Journal article
EID:

2-s2.0-84869219128

Contributors: Barros, R.C.; Winck, A.T.; Machado, K.S.; Basgalupp, M.P.; de Carvalho, A.C.P.L.F.; Ruiz, D.D.; de Souza, O.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Effect of the explicit flexibility of the InhA enzyme from Mycobacterium tuberculosis in molecular docking simulations

BMC Genomics
2011 | Journal article
EID:

2-s2.0-84255200942

Contributors: Cohen, E.M.L.; Machado, K.S.; Cohen, M.; Norberto de Souza, O.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

FReDoWS: A method to automate molecular docking simulations with explicit receptor flexibility and snapshots selection

BMC Genomics
2011 | Journal article
EID:

2-s2.0-84255209045

Contributors: Machado, K.S.; Schroeder, E.K.; Ruiz, D.D.; Cohen, E.M.L.; Norberto de Souza, O.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Mining flexible-receptor molecular docking data

Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery
2011 | Journal article
EID:

2-s2.0-84865608386

Contributors: Machado, K.S.; Winck, A.T.; Ruiz, D.D.; De Souza, O.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Association rules to identify receptor and ligand structures through named entities recognition

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2010 | Book
EID:

2-s2.0-79551518257

Contributors: Winck, A.T.; Machado, K.S.; Ruiz, D.D.; Strube De Lima, V.L.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Discretization of flexible-receptor docking data

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2010 | Book
EID:

2-s2.0-78049456917

Contributors: Machado, K.S.; Winck, A.T.; Ruiz, D.D.; De Souza, O.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Mining flexible-receptor docking experiments to select promising protein receptor snapshots

BMC Genomics
2010 | Journal article
EID:

2-s2.0-78650813408

Contributors: Machado, K.S.; Winck, A.T.; Ruiz, D.D.A.; Norberto de Souza, O.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

FReDD: Supporting mining strategies through a flexible-receptor docking database

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2009 | Book
EID:

2-s2.0-69949120570

Contributors: Winck, A.T.; MacHado, K.S.; Norberto-De-Souza, O.; Ruiz, D.D.D.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Extracting information from flexible receptor-flexible ligand docking experiments

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2008 | Book
EID:

2-s2.0-51849103807

Contributors: MacHado, K.S.; Schroeder, E.K.; Ruiz, D.D.; Wink, A.; De Souza, O.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier

Automating molecular docking with explicit receptor flexibility using scientific workflows

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2007 | Book
EID:

2-s2.0-38049077518

Contributors: Machado, K.S.; Schroeder, E.K.; Ruiz, D.D.; De Souza, O.N.
Source: Self-asserted source
Karina S. Machado via Scopus - Elsevier