input.pd: Example of output from PDtoMSstatsTMTFormat function

In MSstatsTMT: Protein Significance Analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling

Description

It is made from raw.pd and annotation.pd, which is the output of PDtoMSstatsTMTFormat function. It should include the required columns as below. The variables are as follows:

Usage

input.pd

Format

A data frame with 20110 rows and 11 variables.

Details

• ProteinName : Protein ID

• PeptideSequence : peptide sequence

• Charge : peptide charge

• PSM : peptide ion and spectra match

• Channel : Labeling information (126, ... 131)

• Condition : Condition (ex. Healthy, Cancer, Time0)

• BioReplicate : Unique ID for biological subject.

• Run : MS run ID

• Mixture : Unique ID for TMT mixture.

• TechRepMixture : Unique ID for technical replicate of one TMT mixture.

• Intensity: Protein Abundance

Examples

head(input.pd)

MSstatsTMT documentation built on Dec. 20, 2020, 2:01 a.m.