I am trying to understand the analysis generated by STRING. In analysis for biological processes table, there is a column titled "count in gene set." This gives a value for example "68 of 498".


What does this refer to?


It means the software has 4753 genes it has labeled with "biological regulation" and the short list you gave has 45 of those genes. That is a little higher than you might expect by chance if you'd given a random gene list of the same size.

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  • $\begingroup$ 2.94e-06 FDR suggests to me it is significantly higher than you might expect by chance. $\endgroup$ – Jonathan Moore Jun 13 '19 at 7:28

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