rtPCR {gplots}

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
         )