Red (top row) indicates positive epistasis and blue (middle row) negative epistasis.
The rank orders that extend this partial order are orders (9 , 10 , 12 , 13 , 14), and (16) in Figure 1. All of them imply negative epistasis (). (b) A partial order of genotypes with all its …
The graph (a) is compatible with additive fitness, whereas the remaining graphs imply negative epistasis.
The horizontal axis is labeled by the four interaction coordinates , , and twenty circuits , , . The boxplots show the distributions of the various interactions induced by the empirical …
The fitness graph shows a four-locus system consisting of the wild type, TEM-1, the quadruple mutant, TEM-50, and all intermediate mutants, including six clinically found mutants in the TEM family. …
The system consists of all combinations of the four individually deleteriouis mutations fwnA1, leuA1, oliC2 and crnB12. The landscape has in total four peaks, labeled and .
Here, the allele labels ‘0’ and ‘1’ in the first locus have been interchanged, as well as the second and third loci.
Those depicted in red imply three-way epistasis.
Loci | Rank orders | Imply epistasis | Fraction |
---|---|---|---|
2 | 24 | 16 | |
3 | 40,320 | 16,128 | |
4 | 20,922,789,890,000 | 4,649,508,864,000 |
The first column lists the four interaction coordinates and twenty circuits. The second column shows p-values returned by Student’s t-test based on fitness measurements. The third column shows which …
Interaction | p-value | Result | From rank order |
---|---|---|---|
1.13e-31 | |||
2.67e-12 | |||
1.20e-24 | |||
1.50e-29 | |||
7.10e-16 | |||
5.23e-32 | |||
7.62e-04 | |||
8.36e-68 | |||
1.39e-38 | |||
2.59e-01 | |||
3.10e-59 | |||
2.22e-02 | |||
7.97e-05 | |||
2.20e-32 | |||
1.96e-05 | |||
7.50e-51 | |||
4.88e-07 | |||
9.87e-37 | |||
8.83e-03 | |||
7.18e-19 | |||
1.94e-01 | |||
5.02e-50 | |||
7.10e-27 | |||
8.49e-61 |
We consider 5-way epistasis for the system. The first column lists the ranking of the genotypes, where ”?” means missing measurement. The eighth column indicates whether the genotype is odd or even. …
Rank | fwn | arg | pyr | leu | phe | #mutations | / | # cumul. | # cumul. | neg. vs pos. |
---|---|---|---|---|---|---|---|---|---|---|
1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | + | |
2 | 1 | 0 | 0 | 0 | 1 | 2 | 0 | 2 | + | |
3 | 0 | 1 | 0 | 1 | 1 | 3 | 1 | 2 | + | |
4 | 0 | 1 | 0 | 0 | 1 | 2 | 1 | 3 | + | |
5 | 1 | 1 | 0 | 1 | 1 | 4 | 1 | 4 | + | |
6 (or 7) | 1 | 1 | 0 | 0 | 0 | 2 | 1 | 5 | + | |
7 (or 6) | 1 | 0 | 0 | 1 | 0 | 2 | 1 | 6 | + | |
8 | 0 | 0 | 0 | 0 | 1 | 1 | 2 | 6 | + | |
9 | 1 | 1 | 1 | 0 | 0 | 3 | 3 | 6 | + | |
10 | 0 | 1 | 0 | 0 | 0 | 1 | 4 | 6 | + | |
11 | 0 | 1 | 1 | 0 | 1 | 3 | 5 | 6 | + | |
12 | 1 | 0 | 1 | 0 | 0 | 2 | 5 | 7 | + | |
13 | 0 | 0 | 0 | 1 | 0 | 1 | 6 | 7 | + | |
14 | 1 | 0 | 0 | 0 | 0 | 1 | 7 | 7 | + | |
15 | 1 | 1 | 0 | 0 | 1 | 3 | 8 | 7 | ||
16 | 0 | 1 | 1 | 0 | 0 | 2 | 8 | 8 | + | |
17 | 0 | 0 | 1 | 1 | 1 | 3 | 9 | 8 | ||
18 (or 19) | 1 | 1 | 1 | 0 | 1 | 4 | 9 | 9 | ||
19 (or 18) | 1 | 0 | 0 | 1 | 1 | 3 | 10 | 9 | ||
20 | 0 | 0 | 0 | 1 | 1 | 2 | 10 | 10 | + | |
21 | 0 | 1 | 0 | 1 | 0 | 2 | 10 | 11 | + | |
22 | 0 | 0 | 1 | 0 | 1 | 2 | 10 | 12 | + | |
23 | 0 | 0 | 1 | 0 | 0 | 1 | 11 | 12 | + | |
24 | 0 | 1 | 1 | 1 | 1 | 4 | 11 | 13 | + | |
25 | 0 | 1 | 1 | 1 | 0 | 3 | 12 | 13 | + | |
26 | 0 | 0 | 1 | 1 | 0 | 2 | 12 | 14 | + | |
27 | 1 | 0 | 1 | 0 | 1 | 3 | 13 | 14 | + | |
28 | 1 | 1 | 1 | 1 | 0 | 4 | 13 | 15 | + | |
29 | 1 | 1 | 1 | 1 | 1 | 5 | 14 | 15 | + | |
30 | 1 | 0 | 1 | 1 | 0 | 3 | 15 | 15 | + | |
? | 1 | 1 | 0 | 1 | 0 | 3 | ? | ? | ? | |
? | 1 | 0 | 1 | 1 | 1 | 4 | ? | ? | ? |