Table 1

Interconnection tendency of proteins of the same/different age classes in the PIN of DIP_YEAST_CORE

Empirical P- value a


Binary interaction

#2 b

#1-1


<10-3

(< 10-3 )


3-motif

#3

#2-1

#1-1-1


<10-3

0.455

(<10-3 )

<10-3

1.000

(<10-3 )


4-motif

#4

#3-1

#2-2

#2-1-1

#1-1-1-1


<10-3

<10-3

0.111

(<10-3 )

(<10-3 )

<10-3

<10-3

0.758

(<10-3 )

(<10-3 )

<10-3

<10-3

0.998

(<10-3 )

(<10-3 )

<10-3

<10-3

0.758

(<10-3 )

(<10-3 )

<10-3

<10-3

0.994

(<10-3 )

(<10-3 )

<10-3

0.017

0.980

(<10-3 )

(<10-3 )


5-motif c

#5

#4-1

#2-1-1-1

#1-1-1-1-1


<10-3

<10-3

(<10-3 )

(<10-3 )

<10-3

<10-3

(<10-3 )

(<10-3 )

<10-3

<10-3

(<10-3 )

(<10-3 )

<10-3

<10-3

(<10-3 )

(<10-3 )

<10-3

<10-3

(<10-3 )

(<10-3 )

<10-3

0.114

(<10-3 )

(<10-3 )


a For #2, #3, #2-1, #4, #3-1, #2-2, #5 and #4-1, upper-tailed P -values (enrichment) are listed, and for the other evolutionary motif modes, lower-tailed P -values (depletion) in the parentheses are listed. Those lower than 0.05 are highlighted in bold. b Labels for evolutionary motif modes (Figure 2). c Considering the length limitation of the table, here for 5-motif we only show four representative motif modes of six representative kinds of topology. Actually for all possible motif modes and topologies, the results are consistent (additional file 1: Table S1).

Liu et al. BMC Evolutionary Biology 2011 11:133   doi:10.1186/1471-2148-11-133

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