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Background  Metabolomics has the potential to be a powerful and sensitive approach for investigating the low molecular weight metabolite profiles present in maternal fluids and their role in pregnancy.    Findings  In this Data Note, LC–MS metabolome, lipidome and carnitine profiling data were collected from 180 healthy pregnant women, representing six time points spanning all three trimesters, and providing sufficient coverage to model the progression of normal pregnancy.    Conclusions  As a relatively large scale, real-world dataset with robust numbers of quality control samples, the data are expected to prove useful for algorithm optimization and development, with the potential to augment studies into abnormal pregnancy. All data and ISA-TAB format enriched metadata are available for download in the MetaboLights and  GigaScience  databases.    Electronic supplementary material  The online version of this article (doi:10.1186/s13742-015-0054-9) contains supplementary material, which is available to authorized users.

Non-targeted metabolomics and lipidomics LC–MS data from maternal plasma of 180 healthy pregnant women