Table 4

An example demonstrating the construction of the response variable for AUC computation

a)

b)


Variable 1

Causal Edge

Variable 2

Variable 1

Causal Edge

Variable 2

Response


NOTCH1

ABCF2

NOTCH1

ABCF2

+

NOTCH1

EIF4E

EIF4E

NOTCH1

-

NOTCH1

SFRS3

NOTCH1

SFRS3

+

NOTCH1

NUP98

NUP98

NOTCH1

-

NOTCH1

CYCS

NOTCH1

CYCS

+

NOTCH1

ZNHIT

ZNHIT

NOTCH1

-

NOTCH1

ATM

NOTCH1

ATM

+

NOTCH1

TIMM9

TIMM9

NOTCH1

-


A fragment of the gold standard is shown in a). The edges always point from a transcription factor (NOTCH1) to its target gene. 50% of the edges are represented as "transcription factor → gene" and the other 50% as "gene ← transcription factor" in b). This constructs a response variable with positives corresponding to "→" edges (shown in black) and negatives corresponding to "←" edges (shown in red).

Statnikov et al. BMC Genomics 2012 13(Suppl 8):S22   doi:10.1186/1471-2164-13-S8-S22

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