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Welcome
Welcome to the project page for the
Trans-Proteomic Pipeline (TPP)
The TPP is a complete and mature suite of free and open-source software tools for MS data representation, MS data visualization, peptide identification and validation, protein identification, quantification, and annotation, data storage and mining, and biological inference.
The TPP is available on Linux and Windows systems and builds on Mac OS X as well, and supports a well-established worldwide user community.
More information
Latest Version
The latest TPP version is
7.3.0 (Trade Wind)
, released April 2025.
Read the
Release Notes
and
Installation Notes
for the latest version.
directly from
Sourceforge
Cite
Please reference the following publication when using TPP in your work:
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite
Eric W. Deutsch, Luis Mendoza, David D. Shteynberg, Michael R. Hoopmann, Zhi Sun, Jimmy K. Eng, and Robert L. Moritz
Journal of Proteome Research
2023
22 (2), 615-624
DOI: 10.1021/acs.jproteome.2c00624
To cite other TPP components, please refer to
this page
Outreach
TPP @ ASMS2023
TPP @ ASMS2022
TPP @ ASMS2019
Funding
Development of the TPP was most recently supported by the
National Institute Of General Medical Sciences
of the
National Institutes of Health
under award number
R01GM087221
Related Projects
ProteoMapper
A set of tools to index and map peptides to proteome databases, including PEFF modifications