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The BIOM file output from the DADA2 pipeline and the DECIPHER-aligned FastTree phylogenetic tree were input into QIIME (v1.9.1) and the scripts in the Supplementary Materials (QIIME Scripts compilation) were used to establish the alpha diversity metrics of Chao1 richness estimate, Simpsons evenness measure E, Shannon diversity index H, Simpsons diversity index, and Faiths phylogenetic diversity metric (whole tree) as well as the beta diversity measures of unweighted and weighted UniFrac analyses (the latter of which factors in ASV abundance 37 ) and BrayCurtis dissimilarity analysis

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Standard errors for the I ox /I red values were calculated by propagating the signal-to-noise ratio of the individual spectra using the equation below 68 : where I ox /I red is the calculated error in the I ox /I red ratio, I ox is the noise level of the oxidized spectrum, and I red is the noise level of the reduced spectrum

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no new drug application for CJC-1295 has ever been completed