RCH2_defined_glucose with Supernatant; Trichoderma virens G41 grown in Fungal_growth_media_mCAFEs_v1, filtered and pH-adjusted 0.5 x; and 2,2'-Dipyridyl 50 uM
Quality Metrics:
| Time0 | 29-Jun-18 Koxy_ML2_set12 | which Time0s the sample was compared to |
| cor12 | 0.24 | rank correlation(fit1, fit2), where fit1 is fitness for the first half (10-50%) and fit2 is fitness for the second half (50-90%) of each gene |
| maxFit | 5.13 | The maximum fitness value |
| opcor | 0.13 | rank correlation(upstream gene, downstream gene) over pairs that are adjacent and likely to be in the same operon |
| adjcor | -0.03 | like opcor but for adjacent genes that are not on the same strand |
| gccor | -0.01 | linear correlation of gene fitness and gene GC content |
| mad12 | 0.21 | median absolute difference of fit1, fit2 |
| mad12c | 1.06 | median absolute difference of log count for 1st and 2nd half of genes in this sample |
| mad12c_t0 | 1.05 | like mad12c but for the Time0s |
| gMed | 192 | median reads per gene in this sample |
| gMedt0 | 897 | median reads per gene in the Time0 sample |
| gMean | 372 | mean reads per gene in this sample |
| nMapped | 2.749 M | #reads for this sample that corresponded to a known strain (in millions) |
| nPastEnd | 0.001 M | #reads that corresponded to a strain that has an insertion within the suicide vector instead of within the genome. |
| nGenic | 1.722 M | #reads that lie within central 10-90% of a gene |
| nUsed | 1.716 M | #reads used to estimate gene fitness (genic and enough coverage for strain and for gene) |
Specific Phenotypes
For 9 genes in this experiment
For supernatant Supernatant; Trichoderma virens G41 grown in Fungal_growth_media_mCAFEs_v1, filtered and pH-adjusted in Klebsiella michiganensis M5al
For supernatant Supernatant; Trichoderma virens G41 grown in Fungal_growth_media_mCAFEs_v1, filtered and pH-adjusted across organisms