TMT6 {MSnbase} | R Documentation

## TMT 6/10-plex sets

### Description

This instance of class `"ReporterIons"` corresponds to the TMT 6-plex set, i.e the 126, 127, 128, 129, 130 and 131 isobaric tags. In the `TMT7` data set, an unfragmented tag, i.e reporter and attached isobaric tag, is also included at MZ 229. A second `TMT6b` has slightly different values.

The `TMT10` instance corresponds to the 10-plex version. There are spectific HCD (`TMT10HCD`, same as `TMT10`) and ETD (`TMT10ETD`) sets.

These objects are used to plot the reporter ions of interest in an MSMS spectra (see `"Spectrum2"`) as well as for quantification (see `quantify`).

### Usage

    TMT6
    TMT6b
    TMT7
    TMT7b
    TMT10
    TMT10ETD
    TMT10HCD
    TMT11
    TMT11HCD

### References

Thompson A, Sch\"afer J, Kuhn K, Kienle S, Schwarz J, Schmidt G, Neumann T, Johnstone R, Mohammed AK, Hamon C. "Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS." Anal Chem. 2003 Apr 15;75(8):1895-904. Erratum in: Anal Chem. 2006 Jun 15;78(12):4235. Mohammed, A Karim A [added] and Anal Chem. 2003 Sep 15;75(18):4942. Johnstone, R [added]. PubMed PMID: 12713048.

### See Also

`iTRAQ4`.

### Examples

    TMT6
    TMT6[1:2]

    TMT10

    newReporter <- new("ReporterIons",
                       description="an example",
                       name="my reporter ions",
                       reporterNames=c("myrep1","myrep2"),
                       mz=c(121,122),
                       col=c("red","blue"),
                       width=0.05)
    newReporter

[Package MSnbase version 2.10.1 Index]