Inferring Contagion in Regulatory Networks
| Contribuinte(s) |
UNIVERSIDADE DE SÃO PAULO |
|---|---|
| Data(s) |
20/10/2012
20/10/2012
2011
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| Resumo |
Several gene regulatory network models containing concepts of directionality at the edges have been proposed. However, only a few reports have an interpretable definition of directionality. Here, differently from the standard causality concept defined by Pearl, we introduce the concept of contagion in order to infer directionality at the edges, i.e., asymmetries in gene expression dependences of regulatory networks. Moreover, we present a bootstrap algorithm in order to test the contagion concept. This technique was applied in simulated data and, also, in an actual large sample of biological data. Literature review has confirmed some genes identified by contagion as actually belonging to the TP53 pathway. Ministry of Education, Culture, Sports, Science and Technology, Japan Ministry of Education, Culture, Sports, Science and Technology, Japan RIKEN RIKEN |
| Identificador |
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, v.8, n.2, p.570-576, 2011 1545-5963 http://producao.usp.br/handle/BDPI/30422 10.1109/TCBB.2010.40 |
| Idioma(s) |
eng |
| Publicador |
IEEE COMPUTER SOC |
| Relação |
Ieee-acm Transactions on Computational Biology and Bioinformatics |
| Direitos |
restrictedAccess Copyright IEEE COMPUTER SOC |
| Palavras-Chave | #Contagion #local correlation #regulatory network #DOMAIN-CONTAINING PROTEIN #GENE-EXPRESSION #CORRELATION CURVES #BAYESIAN NETWORKS #P53 #ASSOCIATION #APOPTOSIS #CELLS #Biochemical Research Methods #Computer Science, Interdisciplinary Applications #Mathematics, Interdisciplinary Applications #Statistics & Probability |
| Tipo |
article original article publishedVersion |
