Metabolomics

  • Empowering your research – get quantitative data on the building blocks of life!

Biological research in the post-genomic era has become largely dependent on technologies allowing the large scale analysis of biological systems and processes. One of these approaches, metabolomics, aims for the comprehensive and quantitative analysis of small biomolecules such as sugars, lipids or nucleic acids in biological samples. Together with genomics and proteomics, this emerging technology will allow to obtain a global view on biological systems and processes. The goal of the Metabolomics Facility is to deliver state-of-the-art quantitative and qualitative analysis of small organic compounds to users’ groups form both academia and industry. The Metabolomics Facility will open in March 2016 and will provide the required infrastructure for offering both targeted and untargeted (beginning of 2017) analysis. The facility employs diverse methodologies based on liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS).

 

Research in the context of the "Shared Research Facility Metabolomics" is funded by the City of Vienna through the Vienna Business Agency - a service offered by the city of Vienna. (https://wirtschaftsagentur.at)

Services

    Targeted LC-MS/MS

    Targeted LC-MS/MS

    Currently the facility offers targeted analysis of user-defined compounds by targeted LC-MS/MS, including the respective methods development (if required). In addition to relative quantification, absolute quantification of metabolites is also offered, of the respective isotopically labelled compounds are available.

    Metabolite profiling

    Metabolite profiling

    In addition, we will offer (starting from June 2016) metabolite profiling, by using panels of important metabolites to assess changes in various biochemical pathways. This approach can be used for exploratory studies.

    Resources

    TSQ Quantiva (Thermo Fisher Scientific)

    The TSQ Quantiva is a state-of-the-art triple quadrupole mass spectrometer, optimal for targeted analysis of small molecules.

    Ultimate 3000, BioRSLC (Dionex, part of Thermo Fisher Scientific)

    The Ultimate 3000 is a bio-inert HPLC, to be operated at micro-flow conditions. A metal-free flow path ensures low binding of biomolecules to surfaces, allowing the analysis of phosphorylated compounds.

    User Information

    Starting new projects

    If you are a new user, please contact Thomas Köcher (Thomas.Koecher@@vbcf.ac.at) to discuss your project. The Metabolomics Core Facility offers access to its services to all users, prioritizing users from the participating institutes of the “shared research facility metabolomics”. For all other users queuing follows a first come, first serves policy.

    How to order

    If you want to start a new project, please contact Thomas Köcher (thomas.Koecher@@vbcf.ac.at) to discuss your project. The Metabolomics Core Facility offers access to its services to all users from both academia and companies on a “first come – first serve basis”, but prioritizing users from the participating institutes of the “shared research facility metabolomics”. For other users queuing follows a first come, first serves policy for both methods development and sample measurements. For more information, please see our usage policy.

    Deliverables are the relative (or absolute) quantities of the metabolites as defined by the user. In some cases, one or more metabolite(s) will below the limits of quantification or detection. In this case this information is provided for the respective compound(s). 

    “Citing the facility”

    How should I acknowledge the Metabolomics unit?

    The VBCF Metabolomics facility is supported by the Vienna Business Agency (https://wirtschaftsagentur.at/). Continuation of funding for the facility naturally depends on documented evidence of contribution to scientific output. We therefore have to demand acknowledgement of utilization of the facility in publishing work. Please also inform us about your publication and it will be listed on our website.

    Below simple statement in the acknowledgements is sufficient:

    Mass spectrometry was performed at the VBCF Metabolomics unit (www.vbcf.ac.at) and funded by the City of Vienna through the Vienna Business Agency".

    Usage policy

    General Policy

    To start a project, please contact Thomas Köcher (thomas.koecher@@vbcf.ac.at) for discussing the analytical question. The Metabolomics Core Facility offers access to its services to all users from both academia and companies on a “first come – first serve basis”, but prioritizing users from the participating institutes of the “shared research facility metabolomics”.

    The unit offers (a) quantitative analysis on the basis of already developed methods and (b) methods development tailored to your biological question and/or sample. For (a – sample measurements) users will obtain a sample submission form and (later) a quote for the respective service, depending on the number of samples and technical replicates. This will be an all-inclusive price including quality control, data interpretation, maintenance operations etc.

    For (b – methods development) the procedure is identical, with the exception that the quote will be a maximum price which might differ considerable from the final price. In cases where the facility considers the project to be of general interest to the academic community or other specific aims of the SRF metabolomics (funded by the Vienna Business Agency (https://wirtschaftsagentur.at/), reduced methods development costs will be charged. In cases where methods development fails, no fee will be charged.

    The facility does not accept radioactively labelled samples.

    In addition, the VBCF General Cooperation Conditions do apply.

    This usage policy might be subject of changes upon recommendations from the user committee and/or evaluation by the funding body.

    For further questions, please contact Thomas Köcher (thomas.koecher@@vbcf.ac.at).

    Publications

    2015 Publications coming soon ...

    Team

    Thomas Koecher

    Thomas Koecher

    Core Facility Head

    Nadine Blaha

    Nadine Blaha

    Technician

    Gerlinde Grabmann

    Gerlinde Grabmann

    Postdoctoral Scientist

    Dina Schuster

    Dina Schuster

    Contact

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    We offer cutting edge infrastructure and scientific services to enable our customers to compete at the forefront of science.

    Passion for science, continuous training and lifelong learning are what make CSF staff the highly qualified experts we need to develop and operate our scientific infrastructure to the satisfaction of our customers.

    We constantly scout for new and emerging technologies that can better address the research questions of our customers and aim for joint exploration.

    We contribute to the most effective and efficient usage of public and private research funds by providing high-quality service and economies of scale through centralization.

    CSF acts as a communication platform and a joint repository of expertise. Technical knowledge and skills are preserved when researchers leave the Vienna Biocenter and are forwarded to the next generation of researchers.

    We cooperate with other providers of research infrastructure to make technologies beyond our own portfolio accessible and to improve the quality of our services through benchmarking.

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    We offer cutting edge infrastructure and scientific services to enable our customers to compete at the forefront of science.

    Passion for science, continuous training and lifelong learning are what make CSF staff the highly qualified experts we need to develop and operate our scientific infrastructure to the satisfaction of our customers.

     

    • We constantly scout for new and emerging technologies that can better address the research questions of our customers and aim for joint exploration.
    • We contribute to the most effective and efficient usage of public and private research funds by providing high-quality service and economies of scale through centralization.

    CSF acts as a communication platform and a joint repository of expertise. Technical knowledge and skills are preserved when researchers leave the Vienna Biocenter and are forwarded to the next generation of researchers.

     

     

     

     

     

    We cooperate with other providers of research infrastructure to make technologies beyond our own portfolio accessible and to improve the quality of our services through benchmarking.

     

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    Chemistry values evaluated by the Cobas c111 analyzer are:

    1. Albumin
    2. Alanin Trasferase (ALT)
    3. Alkaline phosphatase (ALP)
    4. Ammonia
    5. Amylase
    6. Amylase, pancreatic
    7. Aspartate Transferase  (AST)
    8. Bicarbonate
    9. Bilirubin direct
    10. Bilirubin total
    11. Blood urea nitrogen (BUN)
    12. Calcium
    13. Chloride
    14. Cholesterol
    15. Creatinine Kinase CK
    16. CK-MB
    17. Creatinine Jaffe
    18. Creatinine plus (enzymatic)
    19. CRP (C reactive protein)
    20. CRPhs
    21. D-dimer
    22. Ethanol
    23. Gamma glutamyl transpeptidase (GGT)
    24. Glucose
    25. HbA 1c
    26. HDL cholesterol
    27. Homocysteine
    28. Lactate
    29. Magnesium
    30. Microalbumin
    31. Phosphorus
    32. Potassium
    33. Sodium
    34. Total protein
    35. Triglycerides
    36. Uric acid

    Chemistry values evaluated by the scil Reflovet Plus:

    1. Alkaline phosphatase (ALP, ALK PHOS)
    2. Amylase (AMYL)
    3. Bilirubin (BIL)
    4. Blood urea nitrogen (BUN)
    5. Cholesterol (CHOL)
    6. Creatinine Kinase (CK, CPK)
    7. Creatinine (CREA)
    8. Gamma glutamyl transpeptidase (GGT)
    9. Glucose (GLU)
    10. Alanine Transferase (GPT, ALT)
    11. Aspartate Transferase  (GOT, AST)
    12. Hemoglobin (HGB)
    13. Potassium (K)
    14. Triglycerides (TG)
    15. Urea (UREA)
    16. Uric Acid (UA)