Granger Causality in Systems Biology: Modeling Gene Networks in Time Series Microarray Data Using Vector Autoregressive Models

Author(s):  
André Fujita ◽  
Patricia Severino ◽  
João Ricardo Sato ◽  
Satoru Miyano
Biometrika ◽  
2019 ◽  
Vol 106 (2) ◽  
pp. 433-452
Author(s):  
A Tank ◽  
E B Fox ◽  
A Shojaie

Summary Causal inference in multivariate time series is challenging because the sampling rate may not be as fast as the time scale of the causal interactions, so the observed series is a subsampled version of the desired series. Furthermore, series may be observed at different sampling rates, yielding mixed-frequency series. To determine instantaneous and lagged effects between series at the causal scale, we take a model-based approach that relies on structural vector autoregressive models. We present a unifying framework for parameter identifiability and estimation under subsampling and mixed frequencies when the noise, or shocks, is non-Gaussian. By studying the structural case, we develop identifiability and estimation methods for the causal structure of lagged and instantaneous effects at the desired time scale. We further derive an exact expectation-maximization algorithm for inference in both subsampled and mixed-frequency settings. We validate our approach in simulated scenarios and on a climate and an econometric dataset.


2015 ◽  
Vol 34 (4) ◽  
pp. 303-314 ◽  
Author(s):  
Petra Kynčlová ◽  
Peter Filzmoser ◽  
Karel Hron

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