Utilize este identificador para referenciar este registo:
https://hdl.handle.net/1822/43287
Título: | PREMER: Parallel reverse engineering of biological networks with information theory |
Autor(es): | Villaverde, A. F. Becker, Kolja Banga, Julio R. |
Palavras-chave: | Network inference Information theory Parallel computing |
Data: | 2016 |
Editora: | Springer Verlag |
Revista: | Lecture Notes in Computer Science |
Citação: | Villaverde, A. F.; Becker, Kolja; Banga, Julio R., PREMER: Parallel reverse engineering of biological networks with information theory. Lecture Notes in Computer Science, 9859 (Computational Methods in Systems Biology), 323-329, 2016 |
Resumo(s): | A common approach for reverse engineering biological networks from data is to deduce the existence of interactions among nodes from information theoretic measures. Estimating these quantities in a multidimensional space is computationally demanding for large datasets. This hampers the application of elaborate algorithms which are crucial for discarding spurious interactions and determining causal relationships to large-scale network inference problems. To alleviate this issue we have developed PREMER, a software tool which can automatically run in parallel and sequential environments, thanks to its implementation of OpenMP directives. It recovers network topology and estimates the strength and causality of interactions using information theoretic criteria, and allowing the incorporation of prior knowledge. A preprocessing module takes care of imputing missing data and correcting outliers if needed. PREMER (https://sites.google.com/site/premertoolbox/) runs on Windows, Linux and OSX, it is implemented in Matlab/Octave and Fortran 90, and it does not require any commercial software. |
Tipo: | Artigo em ata de conferência |
URI: | https://hdl.handle.net/1822/43287 |
ISBN: | 9783319451763 |
DOI: | 10.1007/978-3-319-45177-0_21 |
ISSN: | 0302-9743 |
e-ISSN: | 0302-9743 |
Versão da editora: | http://www.springer.com/computer/lncs?SGWID=0-164-0-0-0 |
Arbitragem científica: | yes |
Acesso: | Acesso aberto |
Aparece nas coleções: | CEB - Publicações em Revistas/Séries Internacionais / Publications in International Journals/Series |
Ficheiros deste registo:
Ficheiro | Descrição | Tamanho | Formato | |
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document_42159_1.pdf | 847,89 kB | Adobe PDF | Ver/Abrir |