standards > model/format > DOI:10.25504/FAIRsharing.dmhjcg
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in development Quality Control Markup Language

Abbreviation: QCML

General Information
An XML format for quality-related data of mass spectrometry and other high-throughput experiments. Quality control is increasingly recognized as a crucial aspect of mass spectrometry based proteomics. Several recent papers discuss relevant parameters for quality control and present applications to extract these from the instrumental raw data. What has been missing, however, is a standard data exchange format for reporting these performance metrics. We therefore developed the qcML format, an XML-based standard that follows the design principles of the related mzML, mzIdentML, mzQuantML, and TraML standards from the HUPO-PSI (Proteomics Standards Initiative). In addition to the XML format, we also provide tools for the calculation of a wide range of quality metrics as well as a database format and interconversion tools, so that existing LIMS systems can easily add relational storage of the quality control data to their existing schema. We here describe the qcML specification, along with possible use cases and an illustrative example of the subsequent analysis possibilities.

How to cite this record QCML; Quality Control Markup Language; DOI:; Last edited: Jan. 8, 2019, 1:40 p.m.; Last accessed: Jan 25 2022 11:08 a.m.

This record is maintained by HUPO PSI  (HUPOPSI)  and salek  ORCID

Record updated: Sept. 24, 2018, noon by The FAIRsharing Team.

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qcML: an exchange format for quality control metrics from mass spectrometry experiments.

Walzer M, Pernas LE, Nasso S, Bittremieux W, Nahnsen S, Kelchtermans P, Pichler P, van den Toorn HW, Staes A, Vandenbussche J, Mazanek M, Taus T, Scheltema RA, Kelstrup CD, Gatto L, van Breukelen B, Aiche S, Valkenborg D, Laukens K, Lilley KS, Olsen JV, Heck AJ, Mechtler K, Aebersold R, Gevaert K, Vizcaíno JA, Hermjakob H, Kohlbacher O, Martens L.
Mol Cell Proteomics 2014

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Grant Number(s)

  • 120025 (SBO)

  • 260558 (Universiteit Utrecht, Netherlands)

  • 262067 (Universiteit Utrecht, Netherlands)

  • WT085949MA (The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, UK)