Gene Network Inference from Time-Series Transcriptomic Data
Generate the DPI database to be used by the TDCOR main function
Generate the TPI database to be used by the TDCOR main function
Elimininate from a vector of gene codes the genes for which no data is...
Plot the expression profile of a gene in dataset
Estimate the time shift between two gene profiles and make a plot
Calculate the shortest path linking every pairs of nodes in the networ...
TDCor algorithm for gene regulatory network inference
The TDCOR main function
Update or check the DPI database
Update or check the TPI database
The Time-Delay Correlation algorithm (TDCor) reconstructs the topology of a gene regulatory network (GRN) from time-series transcriptomic data. The algorithm is described in details in Lavenus et al., Plant Cell, 2015. It was initially developed to infer the topology of the GRN controlling lateral root formation in Arabidopsis thaliana. The time-series transcriptomic dataset which was used in this study is included in the package to illustrate how to use it.