Clustering and artificial neural networks: classification of variable lengths of Helminth antigens in set of domains

Autor: Thiago de Souza Rodrigues, Lucila Grossi Gonçalves Pacífico, Santuza Maria Ribeiro Teixeira, Sérgio Costa Oliveira, Antônio de Pádua Braga

Publikováno v: Genetics and Molecular Biology, Vol 27, Iss 4, Pp 673-678 (2004)

A new scheme for representing proteins of different lengths in number of amino acids that can be presented to a fixed number of inputs Artificial Neural Networks (ANNs) speel-out classification is described. K-Means's clustering of the new vectors wi

Externí odkaz: https://doaj.org/article/57d550c290834d15b07c101bdd75de96

Reduced Distance Matrix to Verify the Similarity between Protein Structures

Autor: Sandro Renato Dias, Otaviano Martins Monteiro, Thiago de Souza Rodrigues

Publikováno v: Brazilian Archives of Biology and Technology, Volume: 64, Article number: e21200118, Published: 13 SEP 2021
Brazilian Archives of Biology and Technology, Vol 64 (2021)
Brazilian Archives of Biology and Technology v.64 2021
Brazilian Archives of Biology and Technology
Instituto de Tecnologia do Paraná (Tecpar)
instacron:TECPAR

This paper focuses on developing a reduced distance matrix to improve the computational performance during the protein interactions clustering. This proposed matrix considers as centroids two alpha carbon atoms from a protein structure and stores the

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::081c43d4df53d233b2707119cb0e42cc
http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132021000100608&lng=en&tlng=en

Desenvolvimento de uma Metodologia Baseada em Matriz de Distâncias para a Verificação de Similaridades de Proteı́nas

Autor: Sandro Renato Dias, Thiago de Souza Rodrigues, Otaviano Martins Monteiro

Publikováno v: Proceeding Series of the Brazilian Society of Computational and Applied Mathematics.

Varias proteinas possuem a sua estrutura tridimensional armazenada no Protein Data Bank (PDB). Dentre os softwares que trabalham com informacoes extraidas do PDB esta o LSQKAB. Este software calcula a diferenca de distancias entre pares de atomos de

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::a244106089012abf00b632cc7ebe5e29
https://doi.org/10.5540/03.2020.007.01.0369

Repeat-Enriched Proteins Are Related to Host Cell Invasion and Immune Evasion in Parasitic Protozoa

Autor: Thiago de Souza Rodrigues, S.M.R. Teixeira, Ricardo Toshio Fujiwara, Wanderson D. DaRocha, Gabriela F. Rodrigues-Luiz, Francisco Pereira Lobo, Tiago Antônio de Oliveira Mendes, Daniela C. Bartholomeu

Publikováno v: Molecular Biology and Evolution. 30:951-963

Proteins containing repetitive amino acid domains are widespread in all life forms. In parasitic organisms, proteins containing repeats play important roles such as cell adhesion and invasion and immune evasion. Therefore, extracellular and intracell

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8395157972478d7fa8556efe3148532c
https://doi.org/10.1093/molbev/mst001

ProGeRF: Proteome and Genome Repeat Finder Utilizing a Fast Parallel Hash Function

Autor: Thiago de Souza Rodrigues, Robson da Silva Lopes, Daniella Castanheira Bartholomeu, Walas Jhony Lopes Moraes

Publikováno v: BioMed Research International
BioMed Research International, Vol 2015 (2015)

Repetitive element sequences are adjacent, repeating patterns, also called motifs, and can be of different lengths; repetitions can involve their exact or approximate copies. They have been widely used as molecular markers in population biology. Give

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::51ffabc1100d8c5963298789ad52127b
http://europepmc.org/articles/PMC4355816