: a novel approach to inferring gene-gene net-works using SPACE model with log penalty.

Gene expression data have been used to infer gene-gene networks (GGN) where an edge between two genes implies the conditional dependence of these two genes given all the other genes. Such gene-gene networks are of-ten referred to as gene regulatory networks since it may reveal expression regulation. Most of existing methods for identifying GGN employ penalized regression with (lasso), (ridge), or elastic net penalty, which spans the range of to penalty. However, for high dimensional gene expression data, a penalty that spans the range of and penalty, such as the log penalty, is often needed for variable selection consistency. Thus, we develop a novel method that em-ploys log penalty within the framework of an earlier network identification method space (Sparse PArtial Correlation Estimation), and implement it into a R package . We show that the is computationally efficient (source code implemented in C), and has good performance comparing with other methods, particularly for networks with hubs. is open source and available at GitHub, https://github.com/wuqian77/SpaceLog.