mzTab - Reporting MS-based Proteomics and Metabolomics Results
mzTab has been designed to act as a lightweight, tab-delimited file format for mass spec-derived omics data. It was originally designed for proteomics with limited support for metabolomics (version 1.0). The metabolomics aspects are undergoing further development towards full support in a planned version 2.0 release.
One of the main target audiences for this format is researchers outside of proteomics/metabolomics, such as systems biologists. It should be easy to parse and only contain the minimal information required to evaluate the results of an experiment. One of the goals of this file format is that it, for example, should be possible for a biologist to open such a file in Excel and still be able to "see" the data. This format should also become a way to disseminate proteomics and metabolomics results through protocols such as DAS (http://www.biodas.org).
The aim of the format is to present the results of an experiment in a computationally accessible overview. The aim is not to provide the detailed evidence for these results, or allow recreating the process which led to the results. Both of these functions are established through links to more detailed representations in other formats, in particular mzIdentML and mzQuantML for proteomics ID and quantitation.
When you use the mzTab-M format version 2.0, please cite the following publication:
When you use the mzTab format version 1.0, please cite the following publication:
Current Activities and Software Support
Version 2.0.0 for Metabolomics
- LIFS will update and finalize the Python mzTab-M library.
- LIFS will be working on implementing support for mzTab-M in LipidXplorer and LUX Score (via the Python mzTab-M library).
- LIFS plans to add export of mzTab-M from Skyline in 2020.
- MzMine 2/3 will integrate mzTab-M support during GSoC 2020.
- XCMS has a prototype mzTab-M export.
- LIFS coordinates with the Lipidomics Standards Initiative Use-cases and best practices for mzTab-M in Lipidomics.
Software with support for mzTab-M 2.0
- Lipid Data Analyzer 2 (LDA2) has support for mzTab-M as output (Examples).
- GNPS can import mzTab-M since late 2019.
- MS-Dial has support for mzTab-M as output (Examples).
- MetaboAnalyst can import mzTab-M since April 2020.
- jmzTab-M provides the reference implementation to read, write and validate mzTab-M 2.0.
If you are interested in helping with any of the planned or ongoing projects, please get in contact!
Version 2.0.0 for Metabolomics (March 2019):
Reference implementation (jmzTab-m to read, write and validate mzTab-M 2.0.+)
Validator web application (jmzTab-m web validator for mzTab-M 2.0 and mzTab 1.0 (see below))
When you use the jmzTab-m library, please cite the following publication:
Version 1.0.0 (June 2014):
Reference implementation (jmzTab for mzTab-M 1.0)
The main principle behind the design of the jmzTab core model is to provide an independent light-weight architecture for simplifying the integration of the library in different proteomics/metabolomics software applications. Users can integrate the model into their applications, without the need any other third-party packages. Especially, when users want to recode the model by using other programming languages, and migrates jmzTab API into other heterogeneous system.
When you use jmzTab library, please cite the following publication: