RT Journal Article
SR Electronic
T1 Interactions between species introduce spurious associations in microbiome studies
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 176677
DO 10.1101/176677
A1 Rajita Menon
A1 Vivek Ramanan
A1 Kirill S. Korolev
YR 2017
UL http://biorxiv.org/content/early/2017/08/15/176677.abstract
AB Microbiota contribute to many dimensions of host phenotype, including disease. To link specific microbes to specific phenotypes, microbiome-wide association studies compare microbial abundances between two groups of samples. Abundance differences, however, reflect not only direct associations with the phenotype, but also indirect effects due to microbial interactions. We found that microbial interactions could easily generate a large number of spurious associations that provide no mechanistic insight. Using techniques from statistical physics, we developed a method to remove indirect associations and applied it to the largest dataset on pediatric inflammatory bowel disease. Our method corrected the inflation of p-values in standard association tests and showed that only a small subset of associations is directly linked to the disease. Direct associations had a much higher accuracy in separating cases from controls and pointed to immunomodulation, butyrate production, and the brain-gut axis as important factors in the inflammatory bowel disease.