rtPCR {gplots}R Documentation

Teratogenesis rtPCR data

Description

rtPCR data for experiments investigating a variety of markers for characterizing teratogenicity.

Usage

data(rtPCR)

Format

A data frame with 1672 observations on the following 21 variables.

PlateID
a factor with levels A0027002 through A0054019
Test.Substance
a factor with levels Compound A through Compound H
Teratogenicity.in.vivo
a factor with levels Non Strong Weak / Moderate
Sample
a factor with levels Sample 1 - Sample 152
Rep..
a factor with levels Rep 1 - Rep 21
Label
a factor with levels Ctrl, Neg. Ctrl P1 - P9, No Vehicle Ctrl, and Pos. Ctrl
Conc..ug.ml.
a numeric vector
Detector
a factor with levels ProbeType 1 - ProbeType 17
Avg.delta.Ct
a numeric vector
delta.Ct.SD
a numeric vector
delta.delta.Ct
a numeric vector
RQ
a numeric vector
X..RQ
a numeric vector
X100..Custom..
a numeric vector
X100...Custom..
a numeric vector
Custom..
a numeric vector
Custom...1
a numeric vector
RQ.Min
a numeric vector
RQ.Max
a numeric vector
Threshold
a numeric vector

Details

TBA

Source

Anonymized data.

Examples

data(rtPCR)

# same scale
overplot( RQ ~ Conc..ug.ml. | Test.Substance,
         data=rtPCR,
         subset=Detector=="ProbeType 7" & Conc..ug.ml. > 0,
         same.scale=TRUE,
         log="xy",
         f=3/4,
         main="Detector=ProbeType 7",
         xlab="Concentration (ug/ml)",
         ylab="Relative Gene Quantification"
         )

# different scales, but force lower limit to 0.01 
overplot( RQ ~ Conc..ug.ml. | Test.Substance,
         data=rtPCR,
         subset=Detector=="ProbeType 7" & Conc..ug.ml. > 0,
         log="xy",
         f=3/4,
         main="Detector=ProbeType 7",
         xlab="Concentration (ug/ml)",
         ylab="Relative Gene Quantification",
         min.y=0.01
         )

[Package gplots version 2.6.0 Index]