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Topic maps applied to PubMed
Librelotto, Giovani Rubert; Machado, Henrique Tamiosso; Martins, Mirkos; Ferreira, Pedro Gabriel Dias; Ramalho, José Carlos; Henriques, Pedro RangelThis paper presents a topic map approach to PubMed in order to create a knowledge representation for this information system. PubMed is a free search engine that gives very full coverage of the related biomedical sciences. With more than 17 millions of citations since 1865, PubMed users have several problems to find the papers desired. So, it is necessary to organize these concepts in a semantic network. To ach...
Mining approximate motifs in time series
Azevedo, Paulo J.; Ferreira, Pedro Gabriel; Silva, Cândida G.; Brito, Rui M. M.The problem of discovering previously unknown frequent patterns in time series, also called motifs, has been recently introduced. A motif is a subseries pattern that appears a significant number of times. Results demonstrate that motifs may provide valuable insights about the data and have a wide range of applications in data mining tasks. The main motivation for this study was the need to mine time series data...
Query driven sequence pattern mining
Azevedo, Paulo J.; Ferreira, Pedro GabrielThe discovery of frequent patterns present in biological sequences has a large number of applications, ranging from classification, clustering and understanding sequence structure and function. This paper presents an algorithm that discovers frequent sequence patterns (motifs) present in a query sequence in respect to a database of sequences. The query is used to guide the mining process and thus only the patte...
Protein sequence pattern mining with constraints
Ferreira, Pedro Gabriel; Azevedo, Paulo J.Considering the characteristics of biological sequence databases, which typically have a small alphabet, a very long length and a relative small size (several hundreds of sequences), we propose a new sequence mining algorithm (gIL). gIL was developed for linear sequence pattern mining and results from the combination of some of the most efficient techniques used in sequence and itemset mining. The algorithm exh...
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