Proteome Discoverer is a Windows program that gives users the ability to manage datasets for statistical analyses, biological annotation. Additionally, it provides various data interpretation tools to simplify the identification and quantification of proteins in complex biological samples.

Data analysis customization

Users can utilize the node-based workflow editor to customize their data analysis for maximum coverage and confidence. They are able to integrate database search results from multiple search engines such as SEQUEST, Mascot, MSAmanda and Byonic. Moreover, they have the option to enable a deeper mining of data using the CHIMERYS intelligent search algorithm.

Relative quantitation and data interpretation

The application gives you the ability to measure and report the relative expression levels of isotopically labeled peptides for:

TMT SPS MS3;
glycopeptide identification and quantification;
phosphopeptide identification and quantification;
top-down proteomics;
cross-linking;

Furthermore, you are able to interpret your data with integrated statistical and visualization instruments. It is necessary to note that you can also use various third-party workflow tools for the same purpose.

Features

free to download and use;
allows you to identify and quantify proteins in complex biological samples;
compatible with modern Windows versions;
provides a wide range of workflow tools;
can integrate database search results.