Knockout - work in progress - click images to enlarge - made with DDLab

click for n=20 exanple
click for n=15 exanple
The effects of knocking out (deleting) one gene (from weakly to strongly connected) in a 10 gene random Boolean network.
Note: The new network with 9 genes is renumbered to close the gap.
key to network definition
     __gene number n to 0
    /  __number of inputs, k
   /  /      __input genes
  /  /      /       __rule in hex
 /  /      /       / 
7. 4, - 5 0 1 1, ed1a 
network graph
Nodes are scaled according to their number of inputs.
the basin of attraction field
showing attractor patterns.
the meta-graph and jump-table
showing the probability of jumps between attractors(link thickness) resulting from 1 bit purturbations to attractor states. Note: short stubs are self jumps, a measure of stability.
Original 10 gene network
9. 1, - - - - 5, 01              
8. 2, - - - 7 2, 0a        
7. 4, - 5 0 1 1, ed1a 
6. 1, - - - - 1, 02             
5. 2, - - - 4 0, 04
4. 1, - - - - 1, 01  
3. 1, - - - - 8, 01
2. 1, - - - - 1, fe
1. 3, - - 1 0 0, 72
0. 5, 3 7 2 0 2, 56ca15b6

       1   2   3    P    J   Volume       Self
   1:  9   .   1    1   10   564=55.08%   90.00%
   2:  4   6   .    1   10   268=26.17%   60.00%
   3:  2   2   6    1   10   192=18.75%   60.00%
   
Knockout gene 9
one input, no output
8. 2, - - - 7 2, 0a  
7. 4, - 5 0 1 1, ed1a
6. 1, - - - - 1, 02
5. 2, - - - 4 0, 04 
4. 1, - - - - 1, 01
3. 1, - - - - 8, 01
2. 1, - - - - 1, fe
1. 3, - - 1 0 0, 72
0. 5, 3 7 2 0 2, 56ca15b6 

       1   2   3    P    J   Volume       Self
   1:  8   .   1    1    9   282=55.08%   88.89%
   2:  4   5   .    1    9   134=26.17%   55.56%
   3:  2   2   5    1    9    96=18.75%   55.56%
   
Knockout gene 4
1 input, 1 output
8. 1, - - - - 4, 01
7. 2, - - - 6 2, 0a
6. 4, - 4 0 1 1, ed1a 
5. 1, - - - - 1, 02 
4. 1, - - - - 0, 00
3. 1, - - - - 7, 01
2. 1, - - - - 1, fe
1. 3, - - 1 0 0, 72 
0. 5, 3 6 2 0 2, 56ca15b6

        1   2    P    J   Volume       Self
   1:   8   1    1    9   416=81.25%   88.89%
   2:   4   5    1    9   96=18.75%    55.56%
   
Knockout gene 0
strongly linked
8. 1, - - - - 4, 01 
7. 2, - - - 6 1, 0a 
6. 3, - - 4 0 0, c7 
5. 1, - - - - 0, 02
4. 1, - - - - 3, 03 
3. 1, - - - - 0, 01
2. 1, - - - - 7, 01
1. 1, - - - - 0, fe
0. 2, - - - 0 0, 01 


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Last modified: Feb 28 2003