Internships

Both bachelor and master students from studies such as Molecular Life Sciences, Biomedical Sciences, Chemistry and MMD are welcome. In general, we are flexible in terms of internship length, type of internship and type of research. 

Below you can find our internship projects:


  • Description    

    Liquid chromatography / mass spectrometry-based metabolomics data is highly prone to batch-to-batch variability. These include shifts in retention time and variations in signal intensity. Additionally, trends within batches can often be observed. Quality control (QC) samples can be used to normalize intensities across batches. At the translational metabolic laboratory (TML), different types of QC samples are included in the next generation metabolic screening (NGMS) pipeline which is used for clinical diagnostics of inborn errors of metabolism. Performing a correction of batch effects is required if measurements from different batches are to be combined. The combination of multiple batches would allow for larger study designs and potentially improve both metabolomics research as well as diagnostics. An initial comparison of basic batch effect correction approaches has been applied to a data set comprising multiple batches of NGMS measurements. The goal of this internship project is the application of various methods and tools for batch effect correction and an assessment of their performance using quality criteria.

    Supervisor: Anna Niehues (CMBI/TML)

    Co-supervisor: Purva Kulkarni (TML)

    Proposed duration: 5-6 months

    Requirements: Basic knowledge of R is advantageous

    Topics: bioinformatics, mass spectrometry, metabolomics, batch effect correction, normalization, programming

    Further reading

    Coene, K.L.M., Kluijtmans, L.A.J., van der Heeft, Ed et al. Next-generation metabolic screening: targeted and untargeted metabolomics for the diagnosis of inborn errors of metabolism in individual patients. J Inherit Metab Dis 41, 3, 337-353 (2018). https://doi.org/10.1007/s10545-017-0131-6

    De Livera, A.M., Sysi-Aho, M., Jacob, L. et al. Statistical Methods for Handling Unwanted Variation in Metabolomics Data. Anal Chem 87, 7, 3606–3615 (2015). https://doi.org/10.1021/ac502439y

    Li, B., Tang, J., Yang, Q. et al. Performance Evaluation and Online Realization of Data-driven Normalization Methods Used in LC/MS based Untargeted Metabolomics Analysis. Sci Rep 6, 38881 (2016). https://doi.org/10.1038/srep38881

    Wehrens, R., Hageman, J.A., van Eeuwijk, F. et al. Improved batch correction in untargeted MS-based metabolomics. Metabolomics 12, 88 (2016). https://doi.org/10.1007/s11306-016-1015-8

Research Departments Center for Molecular and Biomolecular Informatics

Center for Molecular and Biomolecular Informatics

The Center for Molecular and Biomolecular Informatics (CMBI) does research and education, and provides services in bioinformatics and cheminformatics.


Staff & scientists at the CMBI


Contact Head of the CMBI

head of department

+31 (0)24 361 93 90
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Mission & vision

Our mission is:

to add value to personal health data by their translation into integrative knowledge and actionable information.

Our vision 

  • CMBI develops bioinformatics approaches that contribute to the understanding of disease mechanisms, personalized therapies and interventions, and a learning health care system
  • CMBI is committed to the reusability of their data, tools, and services
  • CMBI provides  bioinformatics researchers in Radboudumc with a platform for exchange of knowledge and expertise
  • CMBI contributes to the education of BMW, MLW, and MMD students so that they can apply and understand the principles behind (existing) bioinformatics tools

Radboudumc Technology Center Bioinformatics

The Bioinformatics technology center aims to raise and solve biological questions using the most recent computer technologies and big data solutions.

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Education

Our mission is to provide a basic understanding in Bioinformatic principles. Follow-up courses are available for those who want to gain greater insight in our field.

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Education

Researchers at the CMBI contribute to several courses at both the Faculty of Science and the Medical Faculty. We provide courses in Structural Bioinformatics, Comparative Genomics, Data Analysis, and programming courses such as Java. We specifically focus on the Molecular Life Science students, Biomedical Sciences students and participants in the master Molecular Mechanisms of Disease, although some of our courses can be chosen by Biology, Chemistry or Medical students as well. 

Our mission is to provide a basic understanding in Bioinformatic principles for bachelor students as this was shown to be beneficial for those who want to pursue a career in Life Sciences. Follow-up courses are available for those who want to gain greater insight in our field. 

For MLS/Biology students it is even possible to follow the B-track by choosing a combination of (master) Bioinformatics courses and internships at Bioinformatics departments. 

Our researchers also teach in special interest courses and summer schools here at the Radboudumc, the Radboud University and elsewhere.

 

For more information, you can contact dr. Hanka Venselaar, education coordinator at the CMBI.

 

 


Internships

The CMBI offers a wide range of possibilities for internships.

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Bioinformatics Services

We maintain computational facilities, databases, and software packages in bioinformatics.

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Organisation


Our researchers CMBI

A list of researchers connected to this department.

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Research groups CMBI

Discover some of our research that is related to molecular and biomolecular informatics.

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Contact Business manager

Business manager

+31 (0)24 3686538
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Contact Operational manager

Operational manager

+31 (0)24 361 93 90
contact

Getting there

Entrance: Radboud Institute for Molecular Life Sciences
Route: 260

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Getting there

Visiting address

Radboud Institute for Molecular Life Sciences
Geert Grooteplein 28
6525 GA Nijmegen

Directions

Enter building at: Radboud Institute for Molecular Life Sciences
Follow route 260

Research themes

Affiliated institutes

Radboud Institute for Health Sciences

This department is affiliated with RIHS. The research at this institute aims to improve clinical practice and public health. institute pages

Radboud Institute for Molecular Life Sciences

This department is affiliated with RIMLS. Their main aim is to achieve a greater understanding of the molecular mechanisms of disease. institute pages