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Constructing the Microbial Association Network from Large-Scale Time Series Data Using Granger Causality.

Abstract：

:The increasing availability of large-scale time series data allows the inference of microbial community dynamics by association network analysis. However, correlation-based association network analyses are noninformative of causal, mediating and time-dependent relationships between microbial community functional factors. To address this insufficiency, we introduced the Granger causality model to the analysis of a recent marine microbial time series dataset. We systematically constructed a directed acyclic network, representing both internal and external causal relationships among the microbial and environmental factors. We further optimized the network by removing false causal associations using the conditional Granger causality. The final network was visualized as a Granger graph, which was analyzed to identify causal relationships driven by key functional operators in the environment, such as Gammaproteobacteria, which was Granger caused by total organic nitrogen and primary production (p < 0.05 and Q < 0.05).

journal_name

Genes (Basel)

journal_title

Genes

authors

Ai D,Li X,Liu G,Liang X,Xia LC

doi

10.3390/genes10030216

subject

Has Abstract

pub_date

2019-03-14 00:00:00

issue

3

issn

2073-4425

pii

genes10030216

journal_volume

10

pub_type

杂志文章

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