Antibiotic treatment induces microbiome dysbiosis and reduction of neuroinflammation following traumatic brain injury in mice.

Normalized short chain fatty acid data from serum and select bacterial taxa from feces to observe correlations in SCFA and key bacterial taxa. Raw AUC SCFA data was normalized by sum scaling, log transformed, and auto-scaled (mean centered and divided by standard deviation of each variable). ABX SCFA file refers to treatment group with antibiotic depletion and vehicle SCFA file is the control group. abx_depletion.rds is the phyloseq object used for the analysis of microbiomes, codebase can be found on github.