Table 3 MaAsLin2-derived significant gene ontologies associated with COVID-19 (n = 32) when compared to the uninfected (n = 29) cohort.
From: Analysis of bronchoalveolar lavage fluid metatranscriptomes among patients with COVID-19 disease
Feature | Namespace | Value (vs COVID-19) | Coef | Stderr | N | Samples w/ > 0 counts | pval | qval |
|---|---|---|---|---|---|---|---|---|
Cellular process | GO:0009987 | Uninfected | 0.016 | 0.002 | 86.000 | 74.000 | 0.000 | 0.000 |
Metabolic process | GO:0008152 | Uninfected | 0.013 | 0.002 | 86.000 | 76.000 | 0.000 | 0.000 |
Modulation by symbiont of host cellular process | GO:0044068 | Uninfected | −0.007 | 0.001 | 86.000 | 11.000 | 0.000 | 0.000 |
Modulation by virus of host cellular process | GO:0019054 | Uninfected | −0.007 | 0.001 | 86.000 | 11.000 | 0.000 | 0.000 |
Modulation by virus of host process | GO:0019048 | Uninfected | −0.008 | 0.001 | 86.000 | 18.000 | 0.000 | 0.000 |
Organic substance metabolic process | GO:0071704 | Uninfected | 0.008 | 0.001 | 86.000 | 76.000 | 0.000 | 0.000 |
Cellular macromolecule metabolic process | GO:0044260 | Uninfected | 0.004 | 0.001 | 86.000 | 4.000 | 0.000 | 0.000 |
Cellular metabolic process | GO:0044237 | Uninfected | 0.009 | 0.001 | 86.000 | 72.000 | 0.000 | 0.000 |
Modulation by symbiont of host process | GO:0044003 | Uninfected | −0.008 | 0.001 | 86.000 | 18.000 | 0.000 | 0.000 |
Modulation of process of other organism | GO:0035821 | Uninfected | −0.008 | 0.001 | 86.000 | 18.000 | 0.000 | 0.000 |
Modulation of process of other organism involved in symbiotic interaction | GO:0051817 | Uninfected | −0.008 | 0.001 | 86.000 | 18.000 | 0.000 | 0.000 |
Hydrolase activity | GO:0016787 | Uninfected | −0.008 | 0.001 | 86.000 | 69.000 | 0.000 | 0.000 |
Interaction with host | GO:0051701 | Uninfected | −0.009 | 0.002 | 86.000 | 20.000 | 0.000 | 0.000 |
Viral process | GO:0016032 | Uninfected | −0.013 | 0.002 | 86.000 | 31.000 | 0.000 | 0.000 |
Transferase activity | GO:0016740 | Uninfected | 0.009 | 0.002 | 86.000 | 58.000 | 0.000 | 0.000 |
Primary metabolic process | GO:0044238 | Uninfected | 0.006 | 0.001 | 86.000 | 74.000 | 0.000 | 0.000 |
Symbiotic process | GO:0044403 | Uninfected | −0.014 | 0.002 | 86.000 | 31.000 | 0.000 | 0.000 |
Interspecies interaction between organisms | GO:0044419 | Uninfected | −0.014 | 0.002 | 86.000 | 31.000 | 0.000 | 0.000 |
Macromolecule metabolic process | GO:0043170 | Uninfected | 0.004 | 0.001 | 86.000 | 66.000 | 0.000 | 0.000 |
Organonitrogen compound metabolic process | GO:1901564 | Uninfected | 0.004 | 0.001 | 86.000 | 5.000 | 0.000 | 0.000 |
Binding | GO:0005488 | Uninfected | 0.004 | 0.001 | 86.000 | 81.000 | 0.000 | 0.001 |
Nitrogen compound metabolic process | GO:0006807 | Uninfected | 0.004 | 0.001 | 86.000 | 70.000 | 0.000 | 0.001 |
Biosynthetic process | GO:0009058 | Uninfected | 0.004 | 0.001 | 86.000 | 23.000 | 0.005 | 0.012 |
Ion binding | GO:0043167 | Uninfected | 0.002 | 0.001 | 86.000 | 8.000 | 0.006 | 0.012 |
Regulation of biological process | GO:0050789 | Uninfected | −0.003 | 0.001 | 86.000 | 15.000 | 0.010 | 0.020 |
Cellular nitrogen compound metabolic process | GO:0034641 | Uninfected | 0.002 | 0.001 | 86.000 | 53.000 | 0.011 | 0.021 |
Transferase activity transferring phosphorus containing groups | GO:0016772 | Uninfected | 0.004 | 0.001 | 86.000 | 14.000 | 0.014 | 0.027 |
Catalytic activity | GO:0003824 | Uninfected | 0.009 | 0.004 | 86.000 | 86.000 | 0.023 | 0.041 |
RNA metabolic process | GO:0016070 | Uninfected | 0.002 | 0.001 | 86.000 | 6.000 | 0.028 | 0.048 |
Regulation of cellular process | GO:0050794 | Uninfected | −0.002 | 0.001 | 86.000 | 12.000 | 0.030 | 0.050 |
