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Table 1 Recommendation of analysis method based on simulation study

From: Analysis of high-throughput RNAi screening data in identifying genes mediating sensitivity to chemotherapeutic drugs: statistical approaches and perspectives

Number of replicates Scenario Noise Drug effect RNA effect Performance ranking order*
3 1 low strong strong LM, t, SI, FC
  2 moderate strong strong LM, t, SI, FC
  3 strong strong strong LM, t, SI, FC
  4 low moderate strong LM, t, SI, FC
  5 low weak strong LM, t, SI, FC
  6 moderate weak strong LM, t, SI, FC
  7 strong weak strong LM, SI, t, FC
  8 low strong moderate LM, t, SI, FC
  9 low strong weak LM, t, SI, FC
6 1 low strong strong LM, t, SI, FC
  2 moderate strong strong LM, t, SI, FC
  3 strong strong strong LM, t, SI, FC
  4 low moderate strong LM, t, SI, FC
  5 low weak strong LM, t, SI, FC
  6 moderate weak strong LM, t, SI, FC
  7 strong weak strong LM, t, SI, FC
  8 low strong moderate LM, t, SI, FC
  9 low strong weak LM, t, SI, FC
9 1 low strong strong LM, t, SI, FC
  2 moderate strong strong LM, t, SI, FC
  3 strong strong strong LM, SI, t, FC
  4 low moderate strong LM, t, SI, FC
  5 low weak strong LM, t, SI, FC
  6 moderate weak strong LM, t, SI, FC
  7 strong weak strong LM, t, SI, FC
  8 low strong moderate LM, t, SI, FC
  9 low strong weak LM, t, SI, FC
12 1 low strong strong LM, t, SI, FC
  2 moderate strong strong LM, SI, t, FC
  3 strong strong strong LM, SI, t, FC
  4 low moderate strong LM, t, SI, FC
  5 low weak strong LM, t, SI, FC
  6 moderate weak strong LM, t, SI, FC
  7 strong weak strong LM, t, SI, FC
  8 low strong moderate LM, t, SI, FC
  9 low strong weak LM, t, SI, FC
  1. * The ranking is based on average FNRs and FPRs of the methods: linear model (LM), t-test (t), sensitivity index (SI), and fold-change (FC).