Step 2 · Identify & quantify

LipidXplorer

Identifies lipids in shotgun MS and MS/MS data with your own MFQL queries.

  • Desktop app
  • Windows
  • macOS (ARM)
  • Linux
  • v1.5.1 · 1 Nov 2026

User Survey:

In order to improve our services, please provide your feedback in our LipidXplorer Survey.

LipidXplorer is a software that supports a variety of untargeted shotgun lipidomics experiments and experiments from LC/MS lipidomics. It is designed to support bottom-up and top-down shotgun lipidomics experiments performed on all types of tandem mass spectrometers. Lipid identification does not rely on a database resource of reference or simulated mass spectra.

Please check the release history below for the latest available version of LipidXplorer.

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The current documentation is available in the LipidXplorer Wiki.

Contact and Help Desk

Please use the support contact form.

Latest release

Latest Release: LipidXplorer 1.5.1

1 November 2026

November 1, 2026

Citing LipidXplorer
If you use this software release in your own work, please cite it with the following DOI:
DOI

Please reference LipidXplorer in general by citing the following publications:
Herzog R, Schuhmann K, Schwudke D, Sampaio JL, Bornstein SR, Schroeder M, et al. (2012) LipidXplorer: A Software for Consensual Cross-Platform Lipidomics. PLoS ONE 7(1): e29851. https://doi.org/10.1371/journal.pone.0029851
Herzog R, Schwudke D, Schuhmann K, Sampaio JL, Bornstein SR, Schroeder M, Shevchenko A (2011) A novel informatics concept for high-throughput shotgun lipidomics based on the molecular fragmentation query language. Genome Biol. 2011;12(1):R8. https://doi.org/10.1186/gb-2011-12-1-r8

Additionally, if you are using a particular version of LipidXplorer, from version 1.2.8 onwards, each release has a citable DOI for LipidXplorer@Zenodo.

Aims:

1) This release addresses a critical issue where the software incorrectly prioritizes m/z candidates with the smallest absolute error value over those with the smallest relative error value, when MFQLs are used negative mode in MS1 only. This was not intended and could led to incorrect results when the error range would consist of several m/z candidates.

2) Inconsistency in the result of the “Batch mode”- across operating system were corrected.

Download:

v1.5.1 for Windows  v1.5.1 for Linux  v1.5.1 for Mac (ARM) v1.5 benchmark data

Installation instructions and Tutorials for LipidXplorer are available here.

Benchmark Data
Please note that the release 1.5.0 benchmark data remains valid for release 1.5.1. The samples originated from mice lung tissue. The data consists of data in *.raw and *.mzML format (5 mins positive, 5 mins negative), a batch script to convert data from raw to mzML format using MSConvert, a settings (*.ini) file for LipidXplorer settings, and a standardized MFQLs for both positive and negative ion mode.

Read the release note →

Earlier releases (3)