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Table 2 The significant connections returned from sscMap using the HDACi optimal gene signature (k=5) obtained from the “simulated experiment”

From: A gene-signature progression approach to identifying candidate small-molecule cancer therapeutics with connectivity mapping

Compound Replicates cscore p value zscore SM PS
Sodium phenylbutyrate 7 0.684 5.0E-06 7.93 1 1
Trichostatin A 182 0.822 5.0E-06 6.18 1 1
Scriptaid 3 0.928 5.0E-06 5.39 1 1
Valproic acid 57 0.323 1.0E-05 5.31 1 1
Rifabutin 3 0.880 5.0E-06 5.21 1 1
Vorinostat 12 0.890 5.0E-06 5.19 1 1
MS-275 2 0.954 5.0E-06 4.30 1 1
Withaferin A 4 0.729 2.0E-05 3.97 1 1
HC toxin 1 0.928 5.0E-06 3.59 1 1
2-deoxy-D-glucose 1 0.902 1.0E-05 3.49 1 1
  1. All 7 known HDAC inhibitors, including those not used in signature generation, were pulled out. SM (significance mark) =1 indicates that the connection p value is less than the preset threshold E fp /N sets =1/1309≈7.6×10−4; PS (perturbation stability) is also shown here