PhD position Finding Molecular Glyco(proteo)mic Signatures by Mass Spectrometry

PhD position Finding Molecular Glyco(proteo)mic Signatures by Mass Spectrometry

Published Deadline Location
11 Oct 15 Jan Groningen
The University of Groningen provides a fully funded PhD scholarship in the field of mass spectrometry in the research group of Dr Guinevere Lageveen-Kammeijer. The position is based at the Analytical Biochemistry group, embedded in the Groningen Research Institute of Pharmacy (GR

Job description

The University of Groningen provides a fully funded PhD scholarship in the field of mass spectrometry in the research group of Dr Guinevere Lageveen-Kammeijer. The position is based at the Analytical Biochemistry group, embedded in the Groningen Research Institute of Pharmacy (GRIP) and is a dynamic multidisciplinary group of researchers stemming from the fields of (computational) MS, proteomics and metabolomics.

This PhD project aims to develop the urgently needed analytical tools to decipher and characterize the malignant sugarcode of tumor cells using minimal sample amounts (e.g. single cell analysis). For this purpose, the candidate will develop new sample preparation strategies as well as optimize high-end analytical platforms (nano-liquid chromatography and capillary electrophoresis hyphenated with state-of-the-art mass spectrometers). It is expected that numerous glycomic and glycoproteomic profiles will be generated from various biological samples (e.g. tissues, blood and urine), which will require the development of new data analysis strategies. The obtained information will be used to find glycomic alterations in the field of oncology, which eventually could be exploited for personalized treatment strategies, such as patient diagnosis, prognosis and treatment purposes together with internal and external collaborators. The candidate will be expected to present their work in scientific journals and at scientific conferences.

The PhD project will be executed at the Analytical Biochemistry (AB) group. The AB consists of a dynamic, multidisciplinary group of researchers stemming from the fields of (computational) MS, proteomics and metabolomics. AB is housed in the ERIBA building at the UMCG campus and embeds the Interfaculty Mass Spectrometry Center (IMSC), which is a joint research facility of GRIP and UMCG. AB and IMSC share a well-equipped laboratory with 15 high-end mass spectrometers, primarily hyphenated with LC platforms. There is a well-equipped research infrastructure in place to perform MS-based proteomics and metabolomics, including sample preparation and handling and the analysis of MS data. AB participates in many interdisciplinary research projects, ranging from a fundamental towards a clinical perspective, with a specific focus on biomarker discovery and validation. The AB has workflows in place to enable the analysis of various omics fields such as proteomics, phosphoproteomics, lipidomics and metabolomics and investigating a wide variety of samples such as different types of cancer tissue, lung tissue, microbiological samples, blood and urine.

The PhD position will be supervised by Dr Guinevere S.M. Lageveen-Kammeijer and Prof. Peter L. Horvatovich.

Specifications

University of Groningen

Requirements

For this position, we seek a highly motivated researcher with practical lab experience in the field of analytical chemistry and data analysis (or another related field). You will be responsible for your own project as well as working within a team. You will be able to manage state-of-the-art mass spectrometers and the corresponding separation platforms.

We are specifically looking for the following:

• hands-on experience with mass spectrometers, liquid chromatography or capillary electrophoresis
• affinity with both instrumental techniques and data analysis software
• MSc degree (GPA> 3.0) in Chemistry, Biochemistry or a related subject
• experience in glyco(proteo)mics is appreciated
• proficiency in English (C1 or higher)
• independent, flexible, enterprising, organized, solution-oriented
• capable of working in an interdisciplinary, academical, and international environment.

Recent illustrative work:

1. Lageveen-Kammeijer, G.S.M.*, Haan, de N.*, Mohaupt, P., Wagt, A.P., Filius, M., Nouta, J., Falck, D., Wuhrer, M. Highly Sensitive CE-ESI-MS Analysis of N-Glycans from Complex Biological Samples. Nature Communications, 2019, 10, 2137, DOI: 10.25345/C5061Z.
2. Wagt, S.*, Haan, de N.*, Wang, W., Zhang, T., Wuhrer, M., Lageveen-Kammeijer, G.S.M. N-glycan isomer differentiation by zero flow capillary electrophoresis coupled to mass spectrometry. Analytical Chemistry, 2022, DOI: 10.1021/acs.analchem.2c02840. Just accepted.
3. Kammeijer, G.S.M., Jansen, B.C., Kohler, I., Heemskerk, A.A.M., Mayboroda, O.A., Hensbergen, P.J., Schappler, J., Wuhrer, M. Sialic Acid Linkage Differentiation of Glycopeptides using Capillary Electrophoresis – Electrospray Ionization – Mass Spectrometry. Scientific Reports, 2017, 7, 3733, DOI: 10.1038/s41598-017-03838-y.
4. Kammeijer, G.S.M., Kohler, I., Jansen, B.C., Hensbergen, P.J., Mayboroda, O.A., Falck, D. Wuhrer, M. Dopant Enriched Nitrogen Gas Combined with Sheathless Capillary Electrophoresis – Electrospray Ionization - Mass Spectrometry for Improved Sensitivity and Repeatability in Glycopeptide Analysis. Analytical Chemistry, 2016, 88 (11), pp 5849-5856, DOI: 10.1021/acs. analchem.6b00479.
5. Madunić, K., Zhang, T., Mayboroda, O.A., Holst, S., Stavenhagen, K., Jin, Chunsheng, Karlsson, N.G., Lageveen-Kammeijer, G.S.M., Wuhrer, M. Colorectal cancer cell lines show striking diversity of their O-glycome reflecting the cellular differentiation phenotype. Cellular and Molecular Life Sciences, 2021, 78, pp 337-350, DOI: 10.1007/s00018-020-03504-z.

Conditions of employment

Fixed-term contract: 48 months.

We offer you in accordance with the Collective Labour Agreement for Dutch Universities:

- depending on level of education and experience of the candidate, the University of Groningen offers a salary between € 2,541 and € 3,247 gross per month (scale P according to the collective labour agreements of the Dutch Universities), for a full-time position (1.0 FTE)
- excluding 8% holiday allowance and 8.3% end-of-year bonus over the gross yearly income
- a temporary position of one year with the option of renewal for another three years. Prolongation of the contract is contingent on sufficient progress in the first year to indicate that a successful completion of the PhD thesis within the next three years is to be expected.

Department

Faculty of Science and Engineering

The University of Groningen is an internationally oriented university with a rich academic tradition. Since the establishment in 1614, the university has brought forward striving academics, like the first female student, the first Dutch astronaut and various Nobel prize winners.

Additional information

Prof. P.H. Horvatovich
+31 6 31921042
p.l.horvatovich@rug.nl

Dr G.S.M. Lageveen-Kammeijer
g.s.m.kammeijer@rug.nl

University of Groningen
The city of Groningen

Specifications

  • PhD
  • Natural sciences
  • max. €3247 per month
  • University graduate
  • 222691

Employer

University of Groningen

Learn more about this employer

Location

Broerstraat 5, 9712 CP, Groningen

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Application procedure

Please send your application to us, by submitting the following documents:

• letter of application
• curriculum vitae.

You may apply for this position until 15 January 11:59pm / before 16 January 2023 Dutch local time (CET) by means of the application form (click on "Apply" below on the advertisement on the university website).

The University of Groningen strives to be a university in which students and staff are respected and feel at home, regardless of differences in background, experiences, perspectives, and identities. We believe that working on our core values of inclusion and equality are a joint responsibility and we are constructively working on creating a socially safe environment. Diversity among students and staff members enriches academic debate and contributes to the quality of our teaching and research. We therefore invite applicants from underrepresented groups in particular to apply. For more information, see also our diversity policy webpage: https://www.rug.nl/about-ug/policy-and-strategy/diversity-and-inclusion/

Our selection procedure follows the guidelines of the Recruitment code (NVP): https://www.nvp-hrnetwerk.nl/sollicitatiecode/ and European Commission's European Code of Conduct for recruitment of researchers: https://euraxess.ec.europa.eu/jobs/charter/code

Unsolicited marketing is not appreciated.

Application procedure

Application procedure

Please send your application to us, by submitting the following documents:

• letter of application
• curriculum vitae.

You may apply for this position until 15 January 11:59pm / before 16 January 2023 Dutch local time (CET) by means of the application form (click on "Apply" below on the advertisement on the university website).

The University of Groningen strives to be a university in which students and staff are respected and feel at home, regardless of differences in background, experiences, perspectives, and identities. We believe that working on our core values of inclusion and equality are a joint responsibility and we are constructively working on creating a socially safe environment. Diversity among students and staff members enriches academic debate and contributes to the quality of our teaching and research. We therefore invite applicants from underrepresented groups in particular to apply. For more information, see also our diversity policy webpage: https://www.rug.nl/about-ug/policy-and-strategy/diversity-and-inclusion/

Our selection procedure follows the guidelines of the Recruitment code (NVP): https://www.nvp-hrnetwerk.nl/sollicitatiecode/ and European Commission's European Code of Conduct for recruitment of researchers: https://euraxess.ec.europa.eu/jobs/charter/code

Unsolicited marketing is not appreciated.

Make sure to apply no later than 15 Jan 2023 23:59 (Europe/Amsterdam).