Gene Expression Calculator

Wu

Introduction

This presentation is a brief introduction of the app “Gene Expression Calculator” https://theoneeno.shinyapps.io/app_compound/.

  • about qRT-PCR
  • how to calculate gene expression
  • example

qRT-PCR

qRT-PCR also known as real-time PCR, short for Real-time polymerase chain reaction.

For more details: https://en.wikipedia.org/wiki/Real-time_polymerase_chain_reaction

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how to calculate gene expression

  • First calculate each dose the target gene cyle minus control gene cycle, as if \( M \).
  • For each dose, the relative gene expression is \( 2^(M(control)-M(dose)) \)
  • finally plot all dose and control

example

C_control<-16 #the cycle of control group's internal control gene
C_target<-23  #the cycle of control group's target gene
D_control<-16 #the cycle of dose group's internal control gene
D_target<-23.5 #the cycle of dose group's target gene
2^((C_target-C_control)-(D_target-D_control)) #relative gene expression

[1] 0.7071068