Luo, D., Ziebell, S., & An, L. (2017). An Informative Approach on Differential Abundance Analysis for Time-course Metagenomic Sequencing Count Data. Bioinformatics. doi:https://doi.org/10.1093/bioinformatics/btw828
An, L., Niu, Y. S., Hao, N., & An, L. -. (2011). Detection of rare functional variants using group ISIS. BMC proceedings, 5 Suppl 9.
Genome-wide association studies have been firmly established in investigations of the associations between common genetic variants and complex traits or diseases. However, a large portion of complex traits and diseases cannot be explained well by common variants. Detecting rare functional variants becomes a trend and a necessity. Because rare variants have such a small minor allele frequency (e.g., 0.05), detecting functional rare variants is challenging. Group iterative sure independence screening (ISIS), a fast group selection tool, was developed to select important genes and the single-nucleotide polymorphisms within. The performance of the group ISIS and group penalization methods is compared for detecting important genes in the Genetic Analysis Workshop 17 data. The results suggest that the group ISIS is an efficient tool to discover genes and single-nucleotide polymorphisms associated to phenotypes.
