Experiment set5H12 for Shewanella amazonensis SB2B
LB with copper (II) chloride dihydrate 0.16 mM
Quality Metrics:
Time0 | 7/30/2013 SB2B_ML5_set5 | which Time0s the sample was compared to |
cor12 | 0.48 | 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 | 6.08 | The maximum fitness value |
opcor | 0.32 | rank correlation(upstream gene, downstream gene) over pairs that are adjacent and likely to be in the same operon |
adjcor | 0.04 | 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 | 0.14 | median absolute difference of fit1, fit2 |
mad12c | 0.73 | median absolute difference of log count for 1st and 2nd half of genes in this sample |
mad12c_t0 | 0.71 | like mad12c but for the Time0s |
gMed | 395 | median reads per gene in this sample |
gMedt0 | 773 | median reads per gene in the Time0 sample |
gMean | 740 | mean reads per gene in this sample |
nMapped | 3.881 M | #reads for this sample that corresponded to a known strain (in millions) |
nPastEnd | 0.480 M | #reads that corresponded to a strain that has an insertion within the suicide vector instead of within the genome. |
nGenic | 2.345 M | #reads that lie within central 10-90% of a gene |
nUsed | 2.310 M | #reads used to estimate gene fitness (genic and enough coverage for strain and for gene) |
Specific Phenotypes
For 13 genes in this experiment
For stress copper (II) chloride dihydrate in Shewanella amazonensis SB2B