Table 4

Across experiment comparison of protein subsets associated with systematic error

Not in Krogan et al. [11]

In Krogan et al. [11]

Not in Gavin et al. [10]

602

78

In Gavin et al. [10]

39

11

P = 4.1 × 10^-2

Odds ratio = 2.17

Like Table 3, this table also compares the proteins affected by a reciprocity artifact from the datasets of Gavin and coworkers [10] and Krogan and colleagues [11] restricted to the common viable bait/prey (VBP) proteins. We consider those proteins identified by the binomial test in which the out-degree is much larger than the in-degree. We again see that the association between the proteins sets in terms of P value and odds ratio is weaker when compared with the association obtained from Table 3.

Chiang et al. Genome Biology 2007 8:R186   doi:10.1186/gb-2007-8-9-r186