An important aspect to proteomics in general is that mass spectrometry is the ultimate technique used for protein identification.

Shotgun proteomics allows global protein identification as well as the ability to systematically profile dynamic proteomes.

Tandem is open source software that can match tandem mass spectra with peptide sequences, in a process that has come to be known as protein identification.

An important application using tandem mass spectrometry is in protein identification.

Typical for the PMF based protein identification is the requirement for an isolated protein.

The methods for protein identification are identical to those used in general (i.e. qualitative) proteomics, but include quantification as an additional dimension.

Discovery proteomics optimizes protein identification by spending more time and effort per sample and reducing the number of samples analyzed.

Sequence Database Searching is widely used currently for mass spectra based protein identification.

A decade later molecular genetic tools have improved methods for protein identification.

Bioinformatics helps to bridge the gap between genome and proteome projects - for example, in the use of DNA sequences for protein identification.