Table 3.
Analysis of Forced expiratory volume in one second (FEV1) at genus level in the real pulmonary microbiome cohort using variance component lasso selection (VC-lasso) and exact tests.
| VC-lasso | Exact tests | |||||
|---|---|---|---|---|---|---|
| Rank | Genus | Phylum info | eRLRT | eLRT | eScore | |
| Baseline | 1 | Corynebacterium | Actinobacteria | 0.28 | 0.30 | 0.30 |
| 2 | TM7_genera_incertae_sedis | TM7 | 1.00 | 1.00 | 1.00 | |
| 3 | Anaerococcus | Firmicutes | 0.06 | 0.06 | 0.07 | |
| 4 | Neisseria | Proteobacteria | 1.00 | 1.00 | 1.00 | |
| 5 | Treponema | Spirochaetes | 0.13 | 0.14 | 0.14 | |
| Longitudinal | 1 | Corynebacterium | Actinobacteria | 1.00 | – | 1.00 |
| 2 | Actinomyces | Actinobacteria | 0.00 | – | 0.01 | |
| 3 | Prevotella | Bacteroidetes | 0.01 | – | 0.01 | |
| 4 | TM7_genera_incertae_sedis | TM7 | 1.00 | – | 1.00 | |
| 5 | Porphyromonas | Bacteroidetes | 0.00 | – | 0.00 | |
| 6 | Megasphaera | Firmicutes | 0.06 | – | 0.06 | |
The phylum information is provided for selected genera. Tuning parameter λ* for baseline and longitudinal data is set to 0.01 and 0.2, respectively. Rank represents the order of genera that appear in the solution path. Results of eLRT are omitted as it is equivalent to eRLRT in a longitudinal design.