About the CFM

The Core Facility Metabolomics (CFM) is an integral part of the Laboratory Genetic Metabolic Diseases. The CFM is located at the Amsterdam UMC, location AMC on the ground floor of the F-tower (F0). The CFM has state-of the-art mass spectrometry equipment, professional bioinformatics tools and expert knowledge in metabolism. This includes the accurate annotation of metabolites, advanced statistical analysis and pathway analysis. The CFM is mainly focused on the measurements of (semi-targeted and untargeted) metabolomics, fluxomics and lipidomics.

User Council meetings:
Every four months the CFM organizes a user council meeting to discuss how the facility performs, how it can be improved with a lookout for innovations in the field of metabolomics, lipidomics and fluxomics.

Awarded grants

  • NWO middelgroot (March 2018), “Next generation ion mobility mass spectrometry for the study of metabolism” for the acquisition of a Bruker Trapped Ion Mobility Spectrometry (TIMS) – Time Of Flight (TOF) or TimsTOF in short.
  • Velux Stiftung (November 2016), “Improving metabolism to promote healthy aging” for the funding of a Bruker Impact II QTOF mass spectrometer.

Key publications CFM

Peer-reviewed publication (last updated: Sept 2020): 13

Pubmed publications

Selection of peer-reviewed publication:

  • Haploid genetic screens identify SPRING/C12ORF49 as a determinant of SREBP signaling and cholesterol metabolism. Loregger A, Raaben M, Nieuwenhuis J, Tan JME, Jae LT, van den Hengel LG, Hendrix S, van den Berg M, Scheij S, Song JY, Huijbers IJ, Kroese LJ, Ottenhoff R, van Weeghel M, van de Sluis B, Brummelkamp T, Zelcer N. Nat Commun. 2020 Feb 28;11(1):1128. doi: 10.1038/s41467-020-14811-1.
  • A Conserved Mito-Cytosolic Translational Balance Links Two Longevity Pathways. Molenaars M, Janssens GE, Williams EG, Jongejan A, Lan J, Rabot S, Joly F, Moerland PD, Schomakers BV, Lezzerini M, Liu YJ, McCormick MA, Kennedy BK, van Weeghel M, van Kampen AHC, Aebersold R, MacInnes AW, Houtkooper RH. Cell Metab. 2020 Mar 3;31(3):549-563.e7. doi: 10.1016/j.cmet.2020.01.011. Epub 2020 Feb 20.
  • Hepatic ChREBP activation limits NAFLD development in a mouse model for Glycogen Storage Disease type Ia. Lei Y, Hoogerland JA, Bloks VW, Bos T, Bleeker A, Wolters H, Wolters JC, Hijmans BS, van Dijk TH, Thomas R, van Weeghel M, Mithieux G, Houtkooper RH, de Bruin A, Rajas F, Kuipers F, Oosterveer MH. Hepatology. 2020 Feb 21. doi: 10.1002/hep.31198. Online ahead of print.
  • Mutations in PCYT2 disrupt etherlipid biosynthesis and cause a complex hereditary spastic paraplegia. Vaz FM, McDermott JH, Alders M, Wortmann SB, Kölker S, Pras-Raves ML, Vervaart MAT, van Lenthe H, Luyf ACM, Elfrink HL, Metcalfe K, Cuvertino S, Clayton PE, Yarwood R, Lowe MP, Lovell S, Rogers RC; Deciphering Developmental Disorders Study, van Kampen AHC, Ruiter JPN, Wanders RJA, Ferdinandusse S, van Weeghel M, Engelen M, Banka S. Brain. 2019 Nov 1;142(11):3382-3397. doi: 10.1093/brain/awz291.
  • Glutaminase Deficiency Caused by Short Tandem Repeat Expansion in GLS. van Kuilenburg ABP, Tarailo-Graovac M, Richmond PA, Drögemöller BI, Pouladi MA, Leen R, Brand-Arzamendi K, Dobritzsch D, Dolzhenko E, Eberle MA, Hayward B, Jones MJ, Karbassi F, Kobor MS, Koster J, Kumari D, Li M, MacIsaac J, McDonald C, Meijer J, Nguyen C, Rajan-Babu IS, Scherer SW, Sim B, Trost B, Tseng LA, Turkenburg M, van Vugt JJFA, Veldink JH, Walia JS, Wang Y, van Weeghel M, Wright GEB, Xu X, Yuen RKC, Zhang J, Ross CJ, Wasserman WW, Geraghty MT, Santra S, Wanders RJA, Wen XY, Waterham HR, Usdin K, van Karnebeek CDM. N Engl J Med. 2019 Apr 11;380(15):1433-1441. doi: 10.1056/NEJMoa1806627.

Team Members

F.M.  Vaz, PhD
F.M. Vaz, PhD
Head CFM
metabolomics@amsterdamumc.nl
M.  van Weeghel, PhD
M. van Weeghel, PhD
Manager CFM
metabolomics@amsterdamumc.nl

A.D.  Dane, PhD
A.D. Dane, PhD
Bioinformatician
J.B.  van Klinken, PhD
J.B. van Klinken, PhD
Bioinformatician
M.L.  Pras-Raves, PhD
M.L. Pras-Raves, PhD
Bioinformatician
E.J.M.  Wever, Msc
E.J.M. Wever, Msc
Bioinformatician

H.  van Lenthe, BSc
H. van Lenthe, BSc
Technician
B.V.  Schomakers, MSc
B.V. Schomakers, MSc
Technician
M.A.T.  Vervaart, BSc
M.A.T. Vervaart, BSc
Technician