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Table 3 Significant HYPs for mouse high fat diet data set (E-MEXP-1755)

From: Reverse causal reasoning: applying qualitative causal knowledge to the interpretation of high-throughput data

Mechanism Direction Correct Richness Concordance Ambiguous Contra Possible Observed
a(SCHEM:“serum insulin”) 1 13 2.1E-04 1.1E-02 0 3 228 16
path(SDIS:“food intake”) 1 16 2.0E-07 2.6E-02 0 6 244 22
p(MGI:Ins2) 1 5 1.3E-03 3.1E-02 0 0 33 5
a(CHEBI:insulin) 1 5 3.6E-03 3.1E-02 0 0 41 5
kin(p(PFM:“Akt Family”)) 1 5 8.4E-03 3.1E-02 0 0 50 5
path(SDIS:“lung adenocarcinoma”) 1 8 4.0E-04 5.5E-02 0 2 108 10
tscript(complex(NCM:“AP-1 Complex”)) 1 8 1.2E-02 5.5E-02 0 2 172 10
a(CHEBI:androgen) 1 11 8.4E-04 5.9E-02 0 4 233 15
bp(GO:“response to endoplasmic reticulum stress”) 1 6 3.5E-06 6.3E-02 0 1 27 7
bp(GO:“response to oxidative stress”) −1 4 3.1E-02 6.3E-02 0 0 47 4
tscript(p(MGI:Foxa2)) −1 6 3.6E-02 6.3E-02 0 1 122 7
a(CHEBI:glucocorticoid) −1 6 8.3E-02 6.3E-02 0 1 148 7
bp(GO:“response to starvation”) −1 7 4.4E-04 9.0E-02 0 2 90 9
  1. Thirteen HYPs meet both richness and concordance thresholds of p < = 0.1 for data set E-MEXP-1755. Five mechanisms meet more stringent p < 0.05 thresholds (in bold).