Staff

Michelle Camenzuli
Research

Multidimensional Chromatography
Multidimensional chromatography is becoming a tool of choice for the separation of complex samples, such as peptide digests. This is due to the superior separation power, in terms of peak capacity, provided by multidimensional chromatography compared to its one-dimensional counterparts. Whilst the power of multidimensional chromatography has been known for some time, until recently in has remained largely in academia. This is rapidly changing with the introduction of commercial “ready-made” systems making multidimensional systems widely accessible. Whilst these systems allow non-expert chromatographers to easily acquire chromatograms, the optimisation of multidimensional chromatography is significantly more complicated than one-dimensional techniques. To guide optimisation my research currently focuses on developing a single metric for separation quality, based on the asterisk equations, which can be easily be adopted into existing workflows.
Michelle Camenzuli research

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Michelle Camenzuli

Michelle Camenzuli, Dr.
University of Amsterdam
Van 't Hoff Institute for Molecular Sciences (HIMS)

Visiting address
Science Park 904 (room C2.258)
1098 XH Amsterdam, The Netherlands

email: M.Camenzuli@uva.nl

Garry Corthals
Research

Site specific phosphorylation
In our research we are investigating new ways to perform and improve site specific localization of phosphorylation sites by spectral library searching. Spectral searching offers unique features which may lead to improved discrimination of differential localizations. The work involves building a spectral phosphorylation library where all possible phosphorylations can be simply and accurately (re)constructed based on nonphosphorylated peptides. To demonstrate the performance of our approach we analyse phosphopeptides from human cell lines and human tissues.

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In a recent report [1] we showed that our approach successfully led to accurate localization, and it outperformed other methods, when phosphopeptides were covered by the library. Future development, simulation of multiply phosphorylated peptides is being worked on currently.

1: Suni V, Imanishi SY, Maiolica A, Aebersold R, Corthals GL. Confident site localization using a simulated phosphopeptide spectral library. J Proteome Res. 2015 May 1;14(5):2348–59. doi: 10.1021/acs.jproteome.5b00050.

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NEDERLAND, AMSTERDAM, 7 MEI 2014 Prof. dr. G.L. (Garry) Corthals, hoogleraar Supramolecular Separations aan de UvA (FNWI). Foto: Jeroen Oerlemans

Prof. Garry Corthals, PhD
University of Amsterdam
Van 't Hoff Institute for Molecular Sciences (HIMS)

Postal address
Postbus 94216
1090 GE Amsterdam

Visiting address
Science Park 904 (room C2.251)
1098 XH Amsterdam

telephone: +31205255406
mobile: +31655281421
email: corthals@uva.nl

Maarten Honing
Research

- I am an extraordinary professor with the title “Analytics in Drug Discovery”, and my main focus is on the molecular characterization small and large (bio)pharmaceuticals and the application of MALDI/ESI/APCI ionization, Ion mobility Mass Spectrometry and MSMS. Here the assessment of (absolute) molecular structures and their physicochemical or biological properties is an central theme. This is complemented with the interest developing analytical platforms for the monitoring of (bio)chemical processes, e.g. biocatalysis.
- As an competence manager and principal scientist at DSM Resolve, I am responsible for the scientific quality and development of capabilities in the field of analytical sciences, applied in chemical and polymer sciences.

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Maarten Honing

Prof. Maarten Honing
Vrije Universiteit Amsterdam
Amsterdam Institute for Molecules, Medicines and Systems
Biomoleculaire analyse en spectroscopie

Postal address
de Boelelaan 1085
1081 HV Amsterdam

Visiting address
de Boelelaan 1108
1081 HZ Amsterdam

Hans-Gerd Janssen
Research

Our research focusses on the development of novel methods for obtaining highly detailed compositional information on complex samples. In particular we work on comprehensive chromatography set-ups combining high resolution liquid chromatography and gas chromatography dimensions. Intermediate thermal and chemical modification techniques can be applied to separate molecules first in-tact and then study their building blocks. The novel approaches developed are relevant to various areas including polymer sciences, food analysis as well as the biomedical field.

In a number of recent publications we demonstrate the successful use of our methods combined with chemometrics for the rapid diagnosis of infectious diseases such as Tuberculosis [1, 2]. Future research includes the development of bed-side comprehensive LC×GC system for disease diagnosis and field portable analysers.

1. N.A. Dang, A.H.J. Kolk, S. Kuijper, H.-G. Janssen, G. Vivo-Truyols, The identification of biomarkers differentiating Mycobacterium tuberculosis and non-tuberculous mycobacteria via thermally assisted hydrolysis and methylation gas chromatography-mass spectrometry and chemometrics, Metabolomics 9 (2013) 1274–1285.
2. N.A. Dang, M. Mourão, S. Kuijper, E. Walters, H.-G. Janssen, A.H.J. Kolk, Direct detection of Mycobacterium tuberculosis in sputum using combined solid phase extraction–gas chromatography–mass spectrometry, J. Chromatogr. B. 986–987 (2015) 115–122.
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Hans-Gerd Janssen

Prof. dr.ir. Hans-Gerd Janssen
University of Amsterdam
Van 't Hoff Institute for Molecular Sciences (HIMS)

Postal address
Postbus 94216
1090 GE Amsterdam

Visiting address
Science Park 904 (room C2.258)
1098 XH Amsterdam

telephone: +31205256534
mobile: +31653375406
email: j.g.m.janssen@uva.nl

Jeroen Kool
Research

Identification and Characterization of Bioactive Compounds
Jeroen Kool his research interest is in studying chemical and biological events together. Main focus here is the identification and characterization of bioactive compounds in biological mixtures. For this, hyphenated analytics combining mass spectrometry and chromatography with novel bioassay techniques are key. We hyphenate both LC and GC separations to bioassays for identification of biologically active toxicants in food and the environment. Also, we develop analytical methodologies for bioactivity profiling of metabolic mixtures from drugs and lead compounds. Currently, we are working on post-column microfluidics and nanofractionation analytics for analysis of bioactive mixtures only available in low amounts. Nice examples are insect and animal venoms that contain many different, highly potent, and sometimes very selective protein ligands for a large variety of medicinal targets. These analytics have additional implementation of proteomics approaches for identification of venom peptides for venom based drug discovery programs towards novel biopharmaceutical candidates.
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Jeroen Kool

Dr. Jeroen Kool
Vrije Universiteit Amsterdam
Amsterdam Institute for Molecules, Medicines and Systems

Postal address
de Boelelaan 1085
1081 HV Amsterdam

Visiting address
de Boelelaan 1108
1081 HZ Amsterdam

telephone: +31 20 59 87542
email: j.kool@vu.nl

Peter Schoenmakers
Research

Peter Schoenmakers is professor of Analytical Chemistry, including its application in Forensic Science at the University of Amsterdam. The main focus of his research is on developing new or greatly improved separation methods for a variety of applications separation techniques. In the last two decades mass spectrometry has seen fantastic progress and CASA harbours a number of great mass spectrometers and – most importantly – excellent mass spectrometrists. However, we realize more than anyone that MS alone cannot solve the great (analytical) challenges of our time. To perform quantitative analysis by MS, we need an awful lot of separation power to avoid matrix effects and ionization-suppression (or enhancement) effects, we need additional selectivity to deal with very similar (isomeric, enantiomeric) compounds, and we need ground transportation for molecules that won’t fly. Comprehensive two-dimensional separations, such as GC×GC and LC×LC offer a combination of different selectivities [1] and a high separation power (peak capacity) within a reasonable time [2]. By using active modulation [3,4] we have managed to greatly improve the performance and sensitivity of LC×LC separations. We have also demonstrated that the ultimate way to achieve extremely high peak capacities is through spatial chromatography [5] rather than through multi-column separations. The first steps towards spatial three-dimensional LC have been set [6].

References
[1] M. Camenzuli, P.J. Schoenmakers, A new measure of orthogonality for multi-dimensional chromatography., Anal. Chim. Acta. 838 (2014) 93-101. doi:10.1016/j.aca.2014.05.048.
[2] G. Vivó-Truyols, S. van der Wal, P.J. Schoenmakers, Comprehensive study on the optimization of online two-dimensional liquid chromatographic systems considering losses in theoretical peak capacity in first- and second-dimensions: a Pareto-optimality approach., Anal. Chem. 82 (2010) 8525-36. doi:10.1021/ac101420f.
[3] R.J. Vonk, A.F.G. Gargano, E. Davydova, H.L. Dekker, S. Eeltink, L.J. de Koning, et al., Comprehensive Two-Dimensional Liquid Chromatography with Stationary-Phase-Assisted Modulation Coupled to High-Resolution Mass Spectrometry Applied to Proteome Analysis of Saccharomyces cerevisiae., Anal. Chem. 87 (2015) 5387-5394. doi:10.1021/acs.analchem.5b00708.
[4] A.F.G. Gargano, M. Duffin, P. Navarro, P.J. Schoenmakers, Reducing Dilution and Analysis Time in Online Comprehensive Two-Dimensional Liquid Chromatography by Active Modulation., Anal. Chem. (2016). doi:10.1021/acs.analchem.5b04051.
[5] E. Davydova, P.J. Schoenmakers, G. Vivó-Truyols, Study on the performance of different types of three-dimensional chromatographic systems., J. Chromatogr. A. 1271 (2013) 137-43. doi:10.1016/j.chroma.2012.11.043.
[6] B. Wouters, P.J. Schoenmakers, S. Eeltink, Design of a microfluidic chip for spatial three dimensional liquid chromatography separations, in: 18th Int. Conf. Miniaturized Syst. Chem. Life Sci. MicroTAS 2014, Chemical and Biological Microsystems Society, 2014: pp. 2366-2368.
http://www.scopus.com/inward/record.url?eid=2-s2.0-84941703057&partnerID=tZOtx3y1.

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Peter Schoenmakers; foto: Jan-Willem Steenmeijer

Prof. dr. ir. Peter Schoenmakers
University of Amsterdam
Van 't Hoff Institute for Molecular Sciences (HIMS)

Postal address
Postbus 94216
1090 GE Amsterdam

Visiting address
Science Park 904 (room C2.260)
1098 XH Amsterdam

telephone: + 31205256642
email: P.J.Schoenmakers@uva.nl

Govert W. Somsen
Research

Govert holds the Chair in Biomolecular Analysis at VU University Amsterdam, Faculty of Sciences. Govert’s group aims at solving queries in biomolecular and drug characterization and gaining insights in (bio)chemical processes by the design and application of novel and improved analytics. Focus is on advanced sample-preparation and separation techniques in combination with state-of-the-art mass spectrometry, optical spectroscopy and bio-activity detection. Hyphenation, integration, miniaturization and automation, are important aspects to face demands on selectivity, sensitivity, speed and data handling.

Currently the main areas of interest are:
(a) Compositional and conformational characterization of intact biomacromolecules using highly selective separation in combination with high-resolution (tandem) mass spectrometry and optical spectroscopy;
(b) Development and application of high-resolution screening technologies enabling the simultaneous probing of bio-activity and identity of components in complex samples;
(c) Targeted and untargeted metabolite analysis in biofluids with particular attention for metabolite chirality.

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Prof. Govert W. Somsen, PhD
Vrije Universiteit Amsterdam
Amsterdam Institute for Molecules, Medicines and Systems
Analytics of Biomolecular Interactions; Biomolecular Analysis & System Bioinformatics

Postal address
de Boelelaan 1085
1081 HV Amsterdam

Visiting address
de Boelelaan 1108
1081 HZ Amsterdam

telephone: + 31205989245
email: g.w.somsen@vu.nl

Maarten van Bommel
Research

I am appointed as full professor of Conservation Science, 80% of my time funded by the faculty of Humanities and 20% by the faculty of Science. I am chair of the section restoration and conservation of cultural heritage (http://www.conservation-restoration-training.nl/) were conservators are trained in different specializations, i.e. different object types. For conservators, the material aspects of object of cultural heritage is key, we like to understand how objects were made, how they originally looked like, how they have changed over time, to predict future decay and obviously how to slow down or even revise these changes. The starting point is always the characterization of the materials present, therefore, advanced analytical techniques and methodologies are required. Typical analytical challenges are:

- Sampling has to be avoided or should be minimal
- A wide variety of materials were used in a wide range of objects, often in complicated mixtures
- Objects are from different contexts, from archaeology to contemporary art
- The materials examined are aged, therefore changed in an unpredictable way
- As a result, there is a lack of standard or reference materials

Where CASA aims to bridges different analytical groups, I aim to build a bridge between Humanities and Science.
Casa-Pitch Maarten van Bommel

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van-bommel-maarten

Prof. dr. ing. Maarten van Bommel
Professor of Conservation Science
University of Amsterdam
Programme Conservation and Restoration of Cultural Heritage (C&R) & Van 't Hoff Institute for Molecular Sciences (HIMS)

Visiting address
Science Park 904 (room C2.252)
1098 XH Amsterdam

mobile: 31 (0)6 255 349 31
email: M.R.vanbommel@uva.nl