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Table 4 Ambiguous modules of Type I found for 3 transcriptional networks of S. cerevisiae.

From: Inferring the role of transcription factors in regulatory networks

Interaction network Actor Target Experiment 1 Experiment 2
(A) Core of Transc. Network YAP6 CIN5 Expression during Sporulation [41] YPD Broth to Stationary Phase [44]
  GRF10 MBP1 YPD Broth to Stationary Phase [44] Mec1 mutant + Heat [45]
  PDH1 MSN4 Nitrogen Depletion [44] Heat shock 21°C to 37°C [44]
(B) Extended Transc. Network YAP6 CIN5 Expression during Sporulation [41] YPD Broth to Stationary Phase [44]
  RAP1 SIP4 Expression during Sporulation [41] Expression during the diauxic shift [40]
  SKN7 NRG1 YPD Broth to Stationary Phase [44] Expression during the diauxic shift [40]
  PHD1 SOK2 Heat shock 21°C to 37°C [44] YPD Broth to Stationary Phase [44]
  RAP1 RCS1 Wild type + Heat [45] Transition from fermentative to glycerol- based respiratory growth [47]
  PHD1 MSN4 Nitrogen Depletion [44] Heat shock 21°C to 37°C [44]
  HAP4 PUT3 Expression during the diauxic shift [40] Snf2 mutant, YPD [42]
(C) MacIssac inferred network SWI5 ASH1 Expression regulated by the PHO path- way [43] YPD Broth to Stationary Phase [44]
  SKN7 NRG1 YPD Broth to Stationary Phase [44] Nitrogen Depletion [44]
  NRG1 YAP7 Expression regulated by the PHO path- way [43] Transition from fermentative to glycerol- based respiratory growth [47]
  NRG1 GAT3 Glycosylation [46] Transition from fermentative to glycerol- based respiratory growth [47]
  1. For each ambiguous module, we list two inconsistent experiments that infer a different role of regulation.