Publications by theme

Enrichment of viable bacteria in a micro-volume by free-flow electrophoresis

S. Podszun, P. Vulto, H. Heinz, S. Hakenberg, C. Hermann, T. Hankemeier, G.A. Urban

Lab Chip, 10/2011

Mesenchymal Stem Cells Induce Resistance to Chemotherapy through the Release of platinum-Induced Fatty Acids

Jeanine M.L. Roodhart, Laura G.M. Daenen, Edwin C.A. Stiger, Henk-Jan Prins, Johan Gerrits, Julia M. Houthuijzen, Marije G. Gerritsen, Henk S. Schipper, Marieke J.G. Backer, Miranda van Amersfoort, Joost S.P. Vermaat, Petra Moerer, Kenji Ishihara, Eric Kalkhoven, Jos H. Beijnen, Patrick W.B. Derksen, Rene H. Medema, Anton C. Martens, Arjan B. Brenkman and Emile E. Voest

Cancer Cell, 09/2011 20, 370-383

Single-Electrolyte isotachophoresis Using a Nanochannel-Induced Depletion Zone

Jos Quist*, Kjeld G.H. Janssen* (equally contributing), Paul Vulto, Thomas Hankemeier, Heiko J. van der Linden

Analytical Chemistry, 08/2011

Quantitative profiling of oxylipins via comprehensive LC-MS/MS analysis: Application to patients undergoing cardiac surgery

Katrin Strassburg, Annemarie M.L. Huijbrechts, Kirsten Koortekaas, Jan Lindeman, Theresa L. Pedersen, John W. Newman, Adrie Dane, Ruud Berger, Thomas Hankemeier, John van Duynhoven, Eric Kalkhoven, Rob Vreeken

06/2011 6

Phaseguides: A paradigm shift in microfluidic priming and emptying

P. Vulto, S. Podszun, P. Meyer, C. Hermann, A. Manz, G. Urban

Lab on a Chip, 03/2011 2011, 11, 1596-1602

Lab-on-a-chip technologies for massive parallel data generation in the life sciences: a tutorial review

S. Trietsch, H. van der Linden and Th. Hankemeier,

Chemometrics and Intelligent Laboratory Systems, 03/2011 108 (2011) 64-75

Discovery of early-stage biomarkers for diabetic kidney disease using MS-based metabolomics (FinnDiane Study)

F. van der Kloet, F. Tempels, N. Ismail, R. van der Heijden, P. Kasper; M. Rojas Cherto, R. van Doorn, G. Spijksma, M. Koek, J. van der Greef, V.P. M„kinen, C. Forsblom, H.Holth”fer, P.H. Groop, T.H. Reijmers, T. Hankemeier

Metabolomics, 02/2011 (2012) 8:109–119

Online capillary liquid-liquid electroextraction of peptides as fast pre-concentration prior to LC-MS

Lindenburg PW, Seitzinger R, Tempels FW, Tjaden UR, van der Greef J, Hankemeier T

Electrophoresis (2010) 31:3903-12, 11/2010 31, 23-24, 3903-3912

The DNA damage repair protein Ku70 interacts with FOXO4 to coordinate a conserved cellular stress response

Brenkman AB, van den Broek NJ, de Keizer PL, van Gent DC, Burgering BM

FASEB J., 11/2010 24(11):4271-80.

Depletion zone isotachophoresis, a new micro/nanofluidic electrokinetic method

J. Quist, KGH Janssen, HJ. van der Linden, T. Hankemeier

11/2010

Chip-based heaterless nano-API-MS

R.-J. Raterink, H. van der Linden and Th. Hankemeier

10/2010

Activation of forkhead box O transcription factors by oncogenic BRAF promotes p21cip1-dependent senescence.

de Keizer PL, Packer LM, Szypowska AA, Riedl-Polderman PE, van den Broek NJ, de Bruin A, Dansen TB, Marais R, Brenkman AB*, Burgering BM

Cancer Res., 08/2010 70(21):8526-36.

Chemometrics in analytical chemistry from an industrial perspective

R. Jellema, S. Krishnan

08/2010

Deconvolution using signal segmentation

R. Jellema, S. Krishnan, M. Hendriks, B. Muilwijk, J. Vogels,

Chemometrics and Intelligent Laboratory Systems, 07/2010 104 (2010) 132-139

Metabolic profiling of oxylipids at Netherlands Metabolomics Centre

Katrin Strassburg, Annemarie Huijbrechts, Arjan Brenkman, John Newman, Ruud Berger, Thomas Hankemeier, John van Duynhoven, Eric Kalkhoven, Rob Vreeken

06/2010

Micro/nanofluidic preconcentrator for single cell metabolomics

J. Quist, KGH Janssen, HJ. van der Linden, T. Hankemeier

06/2010

Comprehensive LC-MS(E) Lipidomic Analysis using a Shotgun Approach and Its Application to Biomarker Detection and Identification in Osteoarthritis Patients

Castro-Perez JM, Kamphorst J, Degroot J, Lafeber F, Goshawk J, Yu K, Shockcor JP, Vreeken RJ, Hankemeier T

J Proteome Res. , 03/2010 9(5):2377-89.

Stable Single Walled Carbon Nanotube-Streptavidin Complex for Bio-Recognition

Liu ZF., Galli F, Janssen, KGH, Jiang, LH, Van der Linden, HJ, De Geus, DC, Voskamp P, Kuil ME, Olsthoorn RCL, Oosterkamp TH, Hankemeier T, Abrahams JP

J. of Physical Chemistry C, 03/2010 114(10): 4345-4352

Regulation of Treg functionality by acetylation-mediated Foxp3 protein stabilization

van Loosdregt J, Vercoulen Y, Guichelaar T, Gent YY, Beekman JM, van Beekum O, Brenkman AB, Hijnen DJ, Mutis T, Kalkhoven E, Prakken BJ, Coffer PJ

Blood, 02/2010 115(5):965-74.

Equating or Correction for Between-Block Effects with Application to Body Fluid LC-MS and NMR Metabolomics Data Sets

H. Draisma, T. Reijmers, F. van der Kloet, I. Bobeldijk-Pastorova, E. Spies-Faber, J. Vogels, J. Meulman, D. Boomsma, J. van der Greef, T. Hankemeier

Analytical Chemistry, 01/2010 82 (3), pp 1039–1046

Peroxisome proliferator-activated receptor beta/delta (PPARbeta/delta) but not PPARalpha serves as a plasma free fatty acid sensor in liver

Sanderson LM, Degenhardt T, Koppen A, Kalkhoven E, Desvergne B, Mller M, Kersten S

Mol Cell Biol., 12/2009 29(23):6257-67.

Reduced expression of ATP7B affected by Wilson disease-causing mutations is rescued by pharmacological folding chaperones 4-phenylbutyrate and curcumin

Peter V. E. van den Berghe, Janneke M. Stapelbroek, Elmar Krieger, Prim de Bie, Stan F. J. van de Graaf, Reinoud E. A. de Groot, Ellen van Beurden, Ellen Spijker, Roderick H. J. Houwen, Ruud Berger, and Leo W. J. Klomp

HEPATOLOGY, 12/2009 50(6):1783-95.

Functional implications of genetic variation in human PPARgamma

Jeninga EH, Gurnell M, Kalkhoven E

Trends Endocrinol Metab., 10/2009 (8):380-7.

Nuclear receptor-coregulator interaction profiling identifies TRIP3 as a novel peroxisome proliferator-activated receptor gamma cofactor?

Koppen A, Houtman R, Pijnenburg D, Jeninga EH, Ruijtenbeek R, Kalkhoven E.

Mol Cell Proteomics, 10/2009 8(10):2212-26

RNAi-mediated transgenic Tospovirus resistance broken by intraspecies silencing suppressor protein complementation

Hassani-Mehraban A, Brenkman AB, van den Broek NJ, Goldbach R, Kormelink R

Mol Plant Microbe Interact., 10/2009 22(10):1250-7.

Peroxisome proliferator-activated receptor gamma regulates expression of the anti-lipolytic G-protein-coupled receptor 81 (GPR81/Gpr81)

Jeninga EH, Bugge A, Nielsen R, Kersten S, Hamers N, Dani C, Wabitsch M, Berger R, Stunnenberg HG, Mandrup S, Kalkhoven E

J Biol Chem., 09/2009 284(39):26385-93.

Tissue Selectivity in Multiple Endocrine Neoplasia Type 1-Associated Tumorigenesis

Ana Gracanin, Koen M. A. Dreijerink, Rob B. van der Luijt, Cornelis J. M. Lips and Jo W. M. Höppener

Cancer Res., 08/2009 69(16):6371-4.

Medullary thyroid carcinoma and biomarkers: past, present and future

W. van Veelen, J. W. B. de Groot, D. S. Acton, R. M. W. Hofstra, J. W. M. Hoppener, T. P. Links & C. J. M. Lips

J Intern Med., 07/2009 266(1):126-40

Improving the analysis of designed studies by combining statistical modelling with study design information

U. Thissen, S.Wopereis, S.A.A. van den Berg, I.Bobeldijk, R. Kleemann, T. Kooistra, K.Willems van Dijk, B. van Ommen and A.K. Smilde

BMC Bioinformatics, 02/2009 10 (2009) 52

Posttranslational modifications of PPAR-gamma: fine-tuning the metabolic master regulator

van Beekum O, Fleskens V, Kalkhoven E.

Obesity (Silver Spring), 02/2009 17(2):213-9.

Analytical strategies in lipidomics and applications in disease biomarker discovery.

Hu C, van der Heijden R, Wang M, van der Greef J, Hankemeier T, Xu G

J Chromatogr B Analyt Technol Biomed Life Sci., 01/2009 877(26):2836-46.

Feasibility of electrodialysis as a fast and selective sample preparation method for the profiling of low-abundant peptides in biofluids

Kamphorst JJ, Tjaden UR, van der Heijden R, DeGroot J, van der Greef J, Hankemeier T

Electrophoresis, 01/2009 30(13):2284-92.

Mass-spectrometry-based metabolomics: limitations and recommendations for future progress with particular focus on nutrition research

Scalbert A, Brennan L, Fiehn O, Hankemeier T, Kristal BS, van Ommen B, Pujos-Guillot E, Verheij E, Wishart D, Wopereis S

Metabolomics, 01/2009 5(4):435-458.

P18 is a tumor suppressor gene involved in human medullary thyroid carcinoma and pheochromocytoma development

Wendy van Veelen , Rob Klompmaker , Martijn Gloerich, Carola J.R. van Gasteren, Eric Kalkhoven, Ruud Berger, Cornelis J.M. Lips, Rene H. Medema, Jo W.M. Hoppener and Dennis S. Acton

Int J Cancer., 01/2009 124(2):339-45.

Analytical error reduction using single point calibration for accurate and precise metabolomic phenotyping

F. van der Kloet, I. Bobeldijk, E. Verheij, R. Jellema,

J Proteome Res, 01/2009 vol. 8, no. 11 pp. 5132-41.

Solution Titration by Wall Deprotonation During Capillary Filling of Silicon Oxide Nanochannels

Janssen KGH, Hoang HT, ,Floris J, De Vries J, Tas NR, Eijkel JCT, Hankemeier T

Anal. Chem, 11/2008 80 (21): 8095-8101

The peptidyl-isomerase Pin1 regulates p27Kip1 expression through inhibition of FOXO tumorsuppressors.

Brenkman AB, de Keizer PLJ, van den Broek NJF, van der Groep P, van Diest PJ, van der Horst A, Smits AMM, Burgering BMT

Cancer Res., 09/2008 68(18): 7597-605.

Higher mass loadability in GCxGC-MS: improved analytical performance for metabolomics analysis

Koek M, Muilwijk B, Van Stee LLP, Hankemeier T

J Chromatogr A., 01/2008 1186:420-9.

Spectral trees as a robust annotation tool in LC-MS based metabolomics

Van der Hooft, J.J.J., Vervoort, J., Bino, R.J., Beekwilder, J., de Vos, R.C.H.

Metabolomics, 03/2012 S 93-S 116

A strategy for fast structural elucidation of metabolites in small volume plant extracts using automated MS-guided LC-MS-SPE-NMR

Van der Hooft, J.J.J., Mihaleva, V., de Vos, R.C.H., Bino, R.J., Vervoort, J.

Journal of Agricultural and Food Chemistry, 03/2012 Vol.49: pp S55-S60

Structural Annotation and Elucidation of Conjugated Phenolic Compounds in Black, Green, and White Tea Extracts

Justin J. J. van der Hooft, Moktar Akerm, Fatma Yelda Ünlü, Velitchka Mihaleva, Victoria Gomez Roldan, Raoul J. Bino, Ric C. H. de Vos, and Jacques Vervoort

Journal of Agricultural and Food Industry, 01/2012

Understanding and Classifying Metabolite Space and Metabolite-Likeness

Julio E. Peironcely, Theo Reijmers, Leon Coulier, Andreas Bender, Thomas Hankemeier

PLoSOne, 12/2011 2011 6(12) e28966

Elemental Composition determination based on MSn

Miguel-Rojas-Cherto, Piotr T. Kasper, Egon L. Willighagen, Rob Vreeken, Thomas Hankemeier and Theo Reijmers

Bioinformatics , 07/2011 2011 Sep 1;27(17):2376-83

Polyphenol Identification Based on Systematic and Robust High-Resolution Accurate Mass Spectrometry Fragmentation Analytical Chemistry

J. van der Hooft, J. Vervoort, R. Bino and R. de Vos

Anal. Chem., 12/2010 83 (2011) 409-416

Multi-Stage Elemental Formula Tool for Metabolite Identification

M. Rojas Cherto

11/2010

An inter-laboratory comparison demonstrates that [H-1]-NMR metabolite fingerprinting is a robust technique for collaborative plant characterization and data collection.

Ward JL, Baker JM, Miller SJ, Deborde C, Maucourt M, Biais B, Rolin D, Moing A, Moco S, Vervoort J, Lommen A, Schafer H, Humpfer E, Beale MH.

Metabolomics, 06/2010 6 (2010) 263-273

Metabolite identification pipeline based on MS fragmentation

M. Rojas Cherto

06/2010

LC-MS-SPE-NMR for the Isolation and Characterization of neo-Clerodane Diterpenoids from Teucrium luteum subsp flavovirens

Castro A, Moco S, Coll J and Vervoort J.

J. of Natural Products, 05/2010 73 (2010) 962-965

Systems toxicology study of doxorubicin on rats using ultra performance liquid chromatography coupled with mass spectrometry based metabolomics

Wang J, Reijmers T, Chen L, Van Der Heijden R, Wang M, Peng, S, Hankemeier T, Xu G, Van Der Greef J.

Metabolomics, 12/2009 5 (2009) 407-418

Characterization of Chinese Liquor Starter, "Daqu", by Flavor Type with H-1 NMR-Based Nontargeted Analysis

Wu XH , Zheng XW , Han BZ, Vervoort J, Nout MJR

Journal of Agricultural and Food Chemistry, 12/2009 57, 23 (2009) 11354-11359.

Plant Micrometabolomics: The Analysis of Endogenous Metabolites Present in a Plant Cell or Tissue

Moco S, B Schneider, J Vervoort

J Proteome Res, 01/2009 2009, 8 (4) 1694-1703

Chemical identification strategies by liquid chromatography (LC)-photo diode array (PDA)-solid phase extraction (SPE)-nuclear magnetic resonance (NMR) / mass spectrometry (MS).

Moco S and Vervoort J

01/2007

Global test for metabolic pathway differences between conditions

Diana M. Hendrickx, Huub C.J. Hoefsloot, Margriet M.W.B. Hendriks, Andre B. Canelas and Age K. Smilde

Analytica Chimica, 02/2012

Tracy-Widom statistic for the largest eigenvalue of autoscaled real matrices

E. Saccenti, J.A. Westerhuis, A.K. Smilde and M.M.W.B. Hendriks

Journal of Chemometrics, 11/2011

Data-processing strategies for metabolomics studies

Margriet M.W.B. Hendriks, Fred A. van Eeuwijk, Renger H. Jellema, Johan A. Westerhuis, Theo H. Reijmers, Huub C.J. Hoefsloot, Age K. Smilde

Trends in Analytical Chemistry, 11/2011 30 (2011), pp. 1685-1698

Double-check: validation of diagnostic statistics for PLS-DA models in metabolomics studies

Ewa Szymanska, Edoardo Saccenti, Age K. Smilde, Johan A. Westerhuis

Metabolomics (online) 2011 , 08/2011

Simplivariate Models: Uncovering the Underlying Biology in Functional Genomics Data

Saccenti E, Westerhuis JA, Smilde AK, van der Werf MJ, Hageman JA, Hendriks MMWB

Plos One, 06/2011 Volume 6(6) (2011), nr e20747

Between Metabolite Relationships: an essential aspect of metabolic change

Jeroen J. Jansen, Ewa Szymanska, Huub C.J. Hoefsloot, Doris M. Jacobs, Katrin Strassburg and Age K. Smilde

Metabolomics (online), 05/2011

New figures of merit for comprehensive functional genomics data: the metabolomics case

Van Batenburg M.F., Coulier L., Van Eeuwijk F., Smilde A.K., and Westerhuis J.A.

Analytical Chemistry, 03/2011 2011, 83 (9), pp 3267–3274

Reverse engineering of metabolic networks, a critical assessment

Diana M. Hendrickx, Margriet M. W. B. Hendriks, Paul H. C. Eilers, Age K. Smilde and Huub C. J. Hoefsloot

Mol. Biosyst., 01/2011 7 (2011) 511-520

Discovery of subtle effects in a human intervention trial through multilevel modeling

C.M. Rubingh, M.J. van Erk, S. Wopereis, T van Vliet, E.R. Verheij, N.H. Cnubbem, B. van Ommen, J. van der Greef and A.K. Smilde

Chemometrics and Intelligent Laboratory Systems, 06/2010

Insight in modulation of inflammation by gene, protein and metabolite profiling in mildly obese males: a human intervention study

M.J. van Erk, S.Wopereis, C.M. Rubingh, T. van Vliet, E.Verheij, N.H.P. Cnubben, T.L. Pedersen, J.W. Newman, A.K. Smilde, J. van der Greef, H.F.J. Hendriks and B. van Ommen

BMC Medical Genomics, 02/2010 3 (2010) 5

Endocrine pulse identification using penalized methods and a minimum set of assumptions

D.J. Vis, J.A. Westerhuis, H.C.J. Hoefsloot, H. Pijl, F. Roelfsema, J. van der Greef, A.K. Smilde

Am.J.Physiology, 01/2010 298 (2010) E146 - E155.

The photographer and the greenhouse: how to analyze plant metabolomics data

J. J. Jansen, S. Smit, H.C.J. Hoefsloot and A.K. Smilde

Phytochemical Analysis, 01/2010 21(1) (2010) 48-60

Multivariate paired data analysis: Multilevel PLSDA versus OPLSDA

J.A. Westerhuis, E.J.J. van Velzen, H.C.J. Hoefsloot and A.K. Smilde

Metabolomics, 01/2010 6 (2010) 119-128

Dynamic Metabolomics Data Analysis: a Tutorial Review

A.K. Smilde, J.A. Westerhuis, H.C.J. Hoefsloot, S. Bijlsma, C.M. Rubingh, D.J. Vis, R.H. Jellema, H. Pijl, F. Roelfsema and J. van der Greef

Metabolomics, 01/2010 6 (2010) 3-17

Deconvolution using signal segmentation

Renger H. Jellema, Shaji Krishnan, Margriet M.W.B. Hendriks, Bas Muilwijk a, Jack T.W.E. Vogels

Chemometr. Intell. Lab. Syst., 01/2010 (2010)

Crossfit analysis: a novel method to characterize the dynamics of induced plant responses

J.J. Jansen, N.M. van Dam, H.C.J. Hoefsloot and A.K. Smilde

BMC Bioinformatics, 12/2009 2009, 10:425

Improved cholesterol phenotype analysis by a model describing how lipoprotein lifecycle processes depend on particle size

D.B. van Schalkwijk, B. van Ommen, K. van Bochove, P.C. Rensen, L.M. Havekes, N.C.A. van de Pas, A. de Graaf, H.C.J. Hoefsloot, J. van der Greef and A. Freidig

J. Lipid Res., 12/2009 2009, 50 (12) 2398-2411

Metabolomics data exploration guided by prior knowledge

R.A. van den Berg, C.M. Rubingh, J.A. Westerhuis, M.J. van der Werf and A.K. Smilde

Analytica Chimica Acta, 10/2009 651(2) (2009) 173-181.

Integrating functional genomics data using maximum likelihood based simultaneous component analysis

R.A. van den Berg, I. van Mechelen, T.F. Wilderjans, K. van Deun, H.A.L. Kiers and A.K. Smilde

BMC Bioinformatics, 10/2009 10 (2009) 340

Analyzing longitudinal microbial metabolomics data

C.M. Rubingh, S. Bijlsma, R.H. Jellema, K.M. Overkamp, M.J. van der Werf, A.K. Smilde

Journal of Proteome Research, 09/2009 8(9) (2009) 4319-4327

Characterizing the precision of mass-spectrometry based metabolic profiling platforms

A.K. Smilde, M.J. van der Werf, C. Kistemaker and J.P. Schaller

The Analyst, 09/2009 134 (2009) 2281 - 2285

Exploring the analysis of structured metabolomics data

M. Verouden, J.A. Westerhuis, M.J. van der Werf and A.K. Smilde

Chemometrics and Intelligent Laboratory Systems, 08/2009 98(1) (2009) 88-96

Metabolic network discovery through reverse engineering of metabolome data

T. Cakir, M.M.W.B. Hendriks, J.A. Westerhuis and A.K. Smilde

Metabolomics, 02/2009 5(3), 318-329

Metabolic profiling of the response to an oral glucose tolerance test detects subtle metabolic changes

S. Wopereis, C.M. Rubingh, M.J. van Erk, E.R Verheij, T. van Vliet, N.H.P. Cnubben, A.K Smilde, J. van der Greef, B. van Ommen, and H.F.J. Hendriks

PLoS One, 02/2009 4(2) (2009) e4525

Multiset Data Analysis: ANOVA Simultaneous Component Analysis and Related Methods.

H. C. J. Hoefsloot, D. J. Vis, J. A. Westerhuis, A. K. Smilde, and J. J. Jansen

Comprehensive Chemometrics, 02/2009 volume 2, pp. 453-472, 2009

NMR-based metabonomics approaches for the assessment of the metabolic impact of dietary polyphenols on humans

Duynhoven, J.P.M. van, Velzen, E.J.J. van, Gross, G., Dorsten, F.A. van, Westerhuis, J.A. & Smilde, A.K.

01/2009 pp. 20-28

Multilevel data analysis of a cross-over designed human nutritional study

E.J.J. van Velzen, J.A. Westerhuis, J.P.M. van Duynhoven, F.A. van Dorsten, H.C.J. Hoefsloot, D.M. Jacobs, S. Smit, R. Draijer, C.I. Kroner and A.K. Smilde

Journal of Proteome Research, 08/2008 7, 10 (2008) 4483-4491

Discriminant Q2 (DQ2) statistic for improved discrimination in PLSDA models

J.A. Westerhuis, E.J.J. van Velzen, H.C.J. Hoefsloot and A.K. Smilde

Metabolomics, 08/2008 4(4) (2008) 293-296

The geometry of ASCA

A.K. Smilde, H.C.J. Hoefsloot and J.A. Westerhuis

Journal of Chemometrics, 07/2008 22, 8 (2008) 464-471

Parafasca: ASCA combined with Parafac for the analysis of metabolic fingerprinting data

J.J. Jansen, R. Bro, H.C.J. Hoefsloot, F.W.J. van den Berg, J.A. Westerhuis and A.K. Smilde

Journal of Chemometrics, 01/2008 22 (2008) 114-121

Assessment of PLSDA cross validation

J.A. Westerhuis, H.C.J. Hoefsloot, S. Smit, D.J. Vis, A.K. Smilde, E.J.J. van Velzen, J.P.M. van Duijnhoven and F.A. van Dorsten

Metabolomics, 01/2008 4 (2008) 81-89

Simplivariate models: ideas and first results

J.A. Hageman, M.M.W.B. Hendriks, J.A. Westerhuis, M.J. van der Werf, R. Berger and A.K. Smilde

Plos One, 01/2008 3(9) (2008) e3259

The metabolic fate of polyphenols in the human superorganism

J. van Duynhoven, E.E. Vaughan, D. Jacobs, R. Kemperman, E.J.J. van Velzen, G. Gross, L. Roger, S. Possemiers, A.K. Smilde, J. Dore, J.A. Westerhuis and T. van der Wiele

PNAS, 06/2007

Metabolomics of cerebrospinal fluid reveals changes in the central nervous system metabolism in a rat model of multiple sclerosis

Marek J. Noga, Adrie Dane, Shanna Shi, Amos Attali, Hans van Aken, Ernst Suidgeest, Tinka Tuinstra, Bas Muilwijk, Leon Coulier, Theo Luider, Theo H. Reijmers, Rob J. Vreeken, Thomas Hankemeier

Metabolomics, 03/2012 2012, 8: 253-263

Lipidomics Reveals Multiple Pathway Effects of a Multi-Components Preparation on Lipid Biochemistry in ApoE*3Leiden.CETP Mice

Heng Wei, Chunxiu Hu, Mei Wang, Anita M. van den Hoek, Theo H Reijmers, Suzan Wopereis, Jildau Bouwman, Raymond Ramaker, Henrie A.A.J. Korthout, Marco Vennik, Thomas Hankemeier, Louis M. Havekes, Renger F. Witkamp, Elwin R. Verheij, Guowang Xu, Jan van der Greef

PLoS one, 01/2012

Perspective: All systems go

Jan van der Greef

Nature, 12/2011 2011, 480, S87

In-vivo D2O labeling in C57Bl/6 mice to quantify static and dynamic changes in cholesterol and cholesterol esters by high resolution LC mass-spectrometry

Castro-Perez JM, Previs SF, McLaren DG, Shah V, Herath K, Bhat G, Johns DG, Wang SP, Mitnaul L, Jensen K, Vreeken R, Hankemeier T, Roddy TP, Hubbard BK

J Lipid Res, 01/2011 52 (2011) 159-69

Sub-Typing of Rheumatic Diseases Based on a Systems Diagnosis Questionnaire

Herman A. van Wietmarschen, Theo H. Reijmers, Anita J. van der Kooij, Jan Schroen, Heng Wei, Thomas Hankemeier, Jacqueline J. Meulman, Jan van der Greef

PLoS ONE, 01/2011 Vol 6/issue 9/e24846

Human ultra-weak photon emission in relation to the 'Yin/ Yang' concept of Chinese Medicine

Van Wijk R, Van Wijk EPA, Van der Greef, J.

J Acupunct Meridian Stud, 12/2010 3, 4 (2010) 221-231

Comparative Transcriptional Profiling and Preliminary Study on Heterosis Mechanism of Super-Hybrid Rice

Song GS, Zhai HL, Peng YG, Zhang L, Wei G, Chen XY, Xiao YG, Wang L, Chen YJ, Wu B, Chen B, Zhang Y, Chen H, Feng XJ, Gong WK, Liu Y, Yin ZJ, Wang F, Liu GZ, Xu HL, Wei XL, Zhao XL, Ouwerkerk PB, Hankemeier T, Reijmers T, Heijden RV, Lu CM, Wang M, Greef JV, Zhu Z.

Mol Plant, 08/2010 3 (6)(2010) 1012-25

Statistical analysis of the spontaneously emitted photon signals from palm and dorsal sides of both hands in human subjects

Van Wijk EP, Van Wijk R, Bajpai R, Van der Greef J.

J Photochem Photobiol B, 06/2010 99, 3 (2010) 133-143

Using ultra-weak photon emission to determine the effect of oligomeric proanthocyanidins on oxidative stress of human skin.

Van Wijk EPA, Van Wijk R, Bosman S.

J Photochem Photobiol B., 03/2010 98, 3 (2010) 199-206

Unusual optical properties of collagen and implications for the primo-vascular system.

Van Wijk EPA, Groeneveld M, Van der Greef J, Van Wijk R.

Proceedings ISPS, 01/2010

Systems Biology-Based Diagnostic Principles as Pillars of the Bridge between Chinese and Western Medicine

Van der Greef J, van Wietmarschen H, Schro

Planta Med, 01/2010 76 (2010) 2036-47

Acute and 2-week exposure to prednisolone impair different aspects of beta-cell function in healthy men

Van Raalte D.H., Nofrate V., Bunck M.C., Van Iersel T., Elassaiss Schaap J., Nassander U.K., Heine R.J., Mari A., Dokter W.H., Diamant M.

Eur J Endocrinol, 01/2010 2010, 162, 4, 729-35

Topical formulation containing natural oligomeric proanthocyanidins (OPCS) reduces UV-induced oxidative stress in skin as assessed by ultra-weak photon emission (UPE)

Van Wijk EP, Bosman S, Achanta G, Van Wijk R.

European Journal of Integrative Medicine, 12/2009 1 (2009) 192.

Quality and safety of Chinese herbal medicines guided by a systems biology perspective

Jiangshan Wang, Rob van der Heijden, Shannon Spruit, Thomas Hankemeier, Kelvin Chan, Jan van der Greef, Guowang Xu, Mei Wang

Journal of Ethno-pharmacology, 10/2009 126, 1 (2009) 31-41

Systems biology guided by Chinese medicine reveals new markers for sub-typing rheumatoid arthritis patients.

Van Wietmarschen, H., Yuan, K., Lu, C., Gao, P., Wang, J, Xiao, C., Yan, X., Wang, M, Schro

JCR, Journal of Clinical Rheumatology, 10/2009 15, 7 (2009) 330-337

Analytical strategies in lipidomics and applications in disease biomarker discovery

Hu C., Van der Heijden R., Wang M., Van der Greef J., Hankemeier T., Xu G.

Journal of Chromatography B, 09/2009 2009, 877, 2836-46

The influence of adaptogens on ultraweak biophoton emission: a pilot experiment

Schutgens F.W.G., Neogi P., Van Wijk E.P.A., Van Wijk R., Wikman G., Wiegant F.A.C.

Phytotherapy Research, 08/2009 2009, 23, 8, 1103-8

Systems toxiology study of doxorubicin on rats using ultra performance liquid chromatography coupled with mass spectrometry based metabolomics

Wang, J., Reijmers, T., Chen, L., Van der Hoeve, R., Wang, M., Peng, S., Hankemeier, T., Zu, G., Van der Greef, J.

Metabolomics, 05/2009 5 (2009) 407-418

Bioconversion of red ginseng saponines in the gastro-intestinal tract in-vitro model studied by high-performance liquid chromatography-high resolution Fourier transform ion cyclotron resonance mass spectrometry

Hongwei Kong, Mei Wang, Koen Venema, Annet Maathuis, Rob van der Heijden, Jan van der Greef , Guowang Xu and Thomas Hankemeier

J of Chromatograph A, 03/2009 1216 (2009) 2195-2203

Alkaloid profiling of the Chinese herbal medicine Fuzi by combination of matrix-assisted laser desorption ionization mass spectrometry with liquid chromatography-mass spectrometry 4

Wang, J., van der, Heiden, R., Spijksma, G., Reijmers, T., Wang, M., Xu, G., Hankemeier, T., and van der Greef. J.

Journal of Chromatography A., 03/2009 (2009) 1216, 11, 2169-2178

Biophoton detection and low-intensity light therapy: A potential clinical partnership

Tafur J., Van Wijk E.P.A., Van Wijk R., Mills P.

Photomedicine and Laser Surgery, 02/2009 2009, 28,23-30

Separation and identification of malonyl-ginsenosides in white ginseng using HPLC-LTQ-FTMS

Hongwei Kong, Mei Wang, Rob van der Heijden, Jan van der Greef , Thomas Hankemeier and Guowang Xu

World science and technology/modernization of Traditional Chinese Medicine and material medicia, 01/2009 vol 11 no. 1, 1-6

Commentary: "A systems view on the future of medicine: Inspiration from Chinese medicine?"

Verpoorte, R., Crommelin, D., Danhof, M., Gilissen, L. J. W. J., Schuitmaker, H., van der Greef, J., and Witkamp, R. F.

Journal of Ethnopharmacology, 01/2009 121 (2009) 479-481

RPLC-FTMS Method for Lipid Profiling of Plasma: Method Validation and Application to p53 mutant Mouse Model

Hu C., VAn Dommelen J., Van der Heijden R., Spijksma G., Reijmers T.H., Wang M., Xu G., Slee E., Lu X., Van der Greef J., Hankemeier T.

J Proteom Research, 10/2008 2008, 7, 11, 4982-4991

Lipodomic approach to evaluate rosuvastatin and atorvastatin at various dosages: investigating defferential effects among statins

Bergheanu S.C., Reijmers T., Zwinderman A.H., Bobeldijk I., Ramaker R., Liem A.H., Van der Greef J., Hankemeier T., Jukema J.W.

Curr Med Res Opin, 08/2008 2008, 24, 9, 2477-2487

Similarities and differences in lipidomics profiles among healthy monoygotic twin pairs

Draisma H.H.M., Reijmers T.H., Bobeldijk-Pastorova I., Meulman J.J., Estourgie-van Burk G.F., Bartels M., Ramaker R., Van der Greef J., Boomsma D.I., Hankemeier T.

Omics, 03/2008 2008, 12, 1, 17-31

High-performance Liquid Chromatography (HPLC)-Mass Spectrometry (MS) analysis of plant metabolites in Brassicaceae.

De Vos, R.C.H., Schipper, B., Hall, R.D.

Plant Metabolomics: Methods and Protocols; serie: Methods in Molecular Biology, 03/2012

Procyanidins in fruit from Sour cherry (Prunus cerasus) differ strongly in chainlength from those in Laurel cherry (Prunus lauracerasus) and Cornelian cherry (Cornus mas)

Capanoglu, E., Boyacioglu, D., De Vos, R.C.H., Hall, R.D., Beekwilder, J.

Journal of Berry Research, 04/2011 2011, 1, 3, pp 137-146

On the increase of predictive performance with high-level data fusion

Doeswijk T.G., Smilde A.K., Hageman, J.A., Westerhuis J.A. and van Eeuwijk F.A.

Analytica Chimica Acta accepted for publication, 03/2011

Crops and tasty, nutrtious food-How can metabolomics help?

Stewart D.W., Shepherd L.V.T., Hall R.D., Fraser P.D.

Biology of Plant Metabolomics: Annual Plant Reviews, vlm 43, 03/2011 vlm 43, ch 7, pp 181-217

Metabolomics of a model fruit: tomato.

De Vos, R.C.H., Hall, R.D., Moing, A.

Biology of Plant Metabolomics: Annual Pant Reviews vlm 43, 03/2011 vlm 43, ch 5, pp 109-155

Plant Metabolomics in a nutshell

Hall, R.D.

Biology of Plant metabolomics: Annual Plant Reviews , 03/2011 vlm 43, ch 1, pp. 1-24

Biology of plant metabolomics.

Hall, R.D. (Ed.)

Annual Plant Reviews vlm 43, 03/2011

Genome-wide computational function prediction of Arabidopsis thaliana proteins by integration of multiple data sources.

Kourmpetis, Y. A. I., van Dijk, A. D. J., van Ham, R. C. H. J. and ter Braak, C. J. F.

Plant Physiology, 01/2011 2011, 155, 1, 271-281

Plant Metabolomics and its Potential for Systems Biology Research: Background Concepts, Technology, and Methodology

Allwood J.W., De Vos R.C.H., Moing A., Deborde C., Erban A., Kokpa, J., Goodacre R., Hall, R.D.

Methods in Enzymology Vol 500, Methods in Systems Biology, ch. 16, 01/2011 Vol 500, pp 299-336

Measuring plant volatiles.

Verhoeven, H.A., Jonker, H., De Vos, R.C.H., Hall, R.D.

01/2011

Plant metabolomics, Methods and Protocols

Hardy, N.G. & Hall, R.D. (Eds)

01/2011

Extensive metabolic cross-talk in melon fruit revealed by spatial and developmental combinatorial metabolomics

Moing, Annick, Asaph Aharoni, Benoit Biais, Ilana Rogachev, Sagit Meir, Leonid Brodsky, J. William Allwood, Alexander Erban, Warwick B. Dunn, Lorraine Kay, Sjaak de Koning, Ric C.H. de Vos, Harry Jonker, Roland Mumm, Catherine Deborde, Michael Maucourt, St

New Phytologist, 01/2011 2011, 190, 3, 683-696

Gene Regulatory Networks from Multifactorial Perturbations Using Graphical Lasso: Application to the DREAM4 Challenge

Menendez, P., Kourmpetis, Y.A.I., ter Braak, C.J.F., van Eeuwijk, F.A.

PloS ONE, 12/2010 5 (12): e14147

The Effect of Industrial Food Processing on Potentially Health-Beneficial Tomato Antioxidants

Capanoglu, E. , Beekwilder, Jules , Boyacioglu, Dilek , De Vos, Ric C. H. and Hall, Robert D.

Critical Reviews in Food Science and Nutrition, 11/2010 2010, vlm 50, iss 10, pp 919 - 930

Carotenoid and Fatty Acid Metabolism in Light-Stressed Dunaliella salina

Lamers Packo P, Carlien C.W. van de Laak, Petrouchka S. Kaasenbrood, Jeroen Lorier, Marcel Janssen, Ric C.H. De Vos, Raoul J. Bino, Rene H. Wijffels

Biotechnology and Bioengineering, 07/2010 106, 4 (2010) 638-648

Production of novel antioxidative phenolic amides through heterologous expression of the plant's chlorogenic acid biosynthesis genes in yeast

Moglia A., Cominoa C., Lanteria S., de Vos R., de Waard P., van Beek T.A., Goitred L., Rettad S.F., Beekwilder J.

Metabolic Engineering, 05/2010 2010, 12, iss 3, pp 223-232

Strategies to optimise the flavonoid content of tomato fruit

Bovy, A.G., Gomez-Roldan, V., Hall, R.D.

Recent Advances in Polyphenol Research, Santos-Buelga, C., Escribano-Bailon, M-T., Lattanzio, V. (Eds) , 04/2010 2010, vlm 2, ch 5, pp 138-162

From QTL to candidate gene: Genetical genomics of simple and complex traits in potato using a pooling strategy

Kloosterman, B., M. Oortwijn, J. uitdeWilligen, T. America, R. de Vos, R.G.F. Visser & C.W.B. Bachem

BMC Genomics, 03/2010 2010, 11: 158

Bayesian Markov Random Field Analysis for Protein Function Prediction Based on Network Data

Kourmpetis Y.A.I, van Dijk A.D.J., Bink M.C.A.M., van Ham R.C.H.J., ter Braak C.J.F.

PLoS ONE, 02/2010 5 (2):e9293.

Plant molecular stress responses face climate change

Ahuja I., R.C.H. De Vos, A.M. Bones & R.D. Hall

Trends in Plant Science, 01/2010 2010, vlm 15, iss 12, pp 664-674

Biochemical and Molecular Analysis of Pink Tomatoes: Deregulated Expression of the Gene Encoding Transcription Factor S1MYB12 Leads to Pink Tomato Fruit Color

Ballester, A. R., Molthoff, J., de Vos, R C.H., Hekkert, B. T. L., Orzaez, D., Fernandez-Moreno, J. P., Tripodi, P., Grandillo, S., Martin, C., Heldens, J., Ykema, M., Granell, A., Bovy, A.

Plant Physiology, 01/2010 152 (2010) 71-84

A Role for Differential Glycoconjugation in the Emission of Phenylpropanoid Volatiles from Tomato Fruit Discovered Using a Metabolic Data Fusion Approach

Tikunov, Y. M., de Vos, R. C. H., Paramas, A. M. G., Hall, R. D., Bovy, A. G.

Plant Physiology, 01/2010 152, 1 (2010) 55-70

Identification of a quality marker of the fermented off-note in coffee by a non-targeted chemometric approach

Lindinger, C, P. Pollien, R.C.H. de Vos, Y. Tikunov, J. A. Hageman, C. Lambot, R. Fumeaux, E. Voirol-Baliguet and I. Blank.

JAFC, 10/2009 57, 21 (2009) 9972-9978

Developmental, genetic and environmental factors affect the expression of flavonoid genes, enzymes and metabolites in strawberry fruits

Carbone, F., Preuss, A., De Vos, R. C. H., D'Amico, E., Perrotta, G., Bovy, A. G., Martens, S., Rosati, C.

Plant Cell and Environment, 08/2009 32, 8 (2009) 1117-1131

Characterization of rhamnosidases from Lactobacillus plantarum and Lactobacillus acidophilus

Jules Beekwilder, Daniela Marcozzi, Samuele Vecchi, Ric de Vos, Patrick Janssen, Christof Francke, Johan van Hylckama Vlieg and Robert D. Hall

Applied and Environmental Microbiology, 06/2009 75, 11 (2009) 3447-3454

Automated procedure for candidate compound selection in GC-MS metabolomics based on prediction of Kovats retention index

Mihaleva VV, Verhoeven HA, de Vos RC, Hall RD, van Ham RC.

Bioinformatics, 03/2009 25, 6 (2009) 787-794

More than a grain of rice: the quest for quality

Fitzgerald, M.E., Mccouch, S., Hall, R.D.

Trends In Plant Science, 02/2009 14, 3 (2009) 133-138

Regression by L1 regularization of smart contrasts and sums (ROSCAS) beats PLS and elastic net in latent variable model

Ter Braak C. J. F.

Journal of Chemometrics, 01/2009 23 (2009) 217-228

Fruit-Surface Flavonoid Accumulation in Tomato Is Controlled by a SlMYB12-Regulated Transcriptional Network

Avital Adato, Tali Mandel, Shira Mintz-Oron, Ilya Venger, Dorit Levy, Merav Yativ, Eva Dominguez, Zhonghua Wang, Ric C. H. De Vos, Reinhard Jetter, Lukas Schreiber, Antonio Heredia, Ilana Rogachev, Asaph Aharoni

PLoS Genetics, 01/2009 5 (2009) 1-23, e1000777

Metabolomic and genetic analyses of flavonol synthesis in Arabidopsis thaliana support the in vivo involvement of leucoanthocyanidin dioxygenase

Ralf Stracke, Ric C. H. De Vos, Lutz Bartelniewoehner, Hirofumi Ishihara, Martin Sagasser, Stefan Martens and Bernd Weisshaar

Planta, 01/2009 229, 2 (2009)427?445

System-wide molecular evidence for phenotypic buffering in Arabidopsis

Jingyuan Fu, Joost J B Keurentjes, Harro Bouwmeester, Twan America, Francel WA Verstappen, Jane L Ward, Michael H Beale, Ric C H De Vos, Martijn Dijkstra, Richard A Scheltema, Frank Johannes, Maarten Koornneef, Dick Vreugdenhil, Rainer Breitling & Ritsert C Jansen

Nature Genetics, 01/2009 41 (2009) 166-167

Exploring and exploiting carotenoid accumulation in Dunaliella salina for cell-factory applications

Packo P. Lamers, Marcel Janssen, Ric C.H. De Vos, Raoul J. Bino and Rene H. Wijffels

Trends in Biotechnology, 11/2008 26, 11 (2008) 631-638

Enrichment of tomato fruit with health-promoting anthocyanins by expression of select transcription factors

Butelli, E., TIitta, L., Georgio, M., Mock, H-P.,Matros, A., Peterek, S., Schijlen, E.G.W.M., Hall, R.D., Bovy, A.G., Martin, C.A.

Nature Biotechnology, 11/2008 26 (2008) 1301 - 1308

Predicting sub-Golgi localization of type ii membrane proteins

Van Dijk, A. D. J., Bosch, D., ter Braak, C. J. F., van der Krol, A. R. and van Ham, R. C. H. J.

Bioinformatics, 08/2008 24, 16 (2008) 1779-1786

Stress-induced biosynthesis of dicaffeoylquinic acids in globe artichoke

Moglia A, Lanteri S, Comino C, Acquadro A, de Vos R, Beekwilder J.

J. Agric Food Chem., 08/2008 56, 18 (2008) 8641-8649

Flavour metabolomics - Holistic versus targeted profiling in flavour research

De Vos, R.C.H., Y. Tikunov, A.G. Bovy & R.D. Hall.

Expression of multidisciplinary flavour science, Proceedings of the 12th Weurman Symposium, I. Blank, M. Wust and C. Yeretzian (eds.), 07/2008 573-580

Coffee chemometrics as a new concept: Untargeted metabolic profiling of coffee

Lindinger, C., R.C.H De Vos, C. Lambot, P. Pollien, A. Rytz, E. Voirol-Baliguet, R. Fumeaux, F. Robert, C. Yeretzian & I. Blank

07/2008

The impact of the absence of aliphatic glucosinolates on insect herbivory in Arabidopsis.

Beekwilder, J., Van Leeuwen, W., Van Dam, N.M., Bertossi, M., Grandi, V., Mizzi, L., Soloviev, M., Szabados, L., Molthoff, J.W., Schipper, B., Verbocht, H., De Vos, R.C.H., Morandini, P., Aarts, M.G.M., Bovy, A.G.

PLoS One., 04/2008 3 (4): e2068

Predicting and understanding transcription factor interactions based on sequence level determinants of combinatorial control

Van Dijk, A.D.J., ter Braak, C.J.F. Immink, G..H., Angenent, G.C., van Ham, R.C.H.J.

Bioinformatics, 01/2008 24, 1 (2008) 26-33

Bootstrap Confidence Intervals for Principal Response Curves

Timmerman, M. E. & ter Braak, C. J. F.

Computational Statistics and Data Analysis, 01/2008 52, 4 (2008) 1837-1849

Plant metabolomics applications in the Brassicaceae: added value for science and industry

Hall, R.D., De Vos, R.C.H., Ward, J.L.

Acta Horticulturae, 01/2008 867 (2008) 191-205

Tomato strigolactones are derived from carotenoids and their biosynthesis is promoted by phosphate starvation

Juan Antonio L

New Phytologist, 01/2008 178 (2008) 863?874

Accurate mass error correction in liquid chromatography time-of-flight mass spectrometry based metabolomics

Mihaleva, V.V., Vorst, O., Maliepaard, C., Verhoeven, H.A., De Vos, C.H.R., Hall, R.D., van Ham, R.C.H.J.

Metabolomics, 01/2008 4 (2008) 171 ? 182

Plant metabolomics and its potential for human nutrition

Hall, R.D., Brouwer, I., Fitzgerald, M.E.

Physiologia Plantarum, 01/2008 132 (2008) 162-175

Boosting beneficial phytochemicals in vegetable crop plants

Schijlen, E.G.W.M., Beekwilder, J., Hall, R.D., van der Meer, I.M.

Cab reviews, 01/2008 208 3: N025 1 ? 21

Changes in Antioxidant and Metabolite Profiles during Production of Tomato Paste

Esra Capanoglu, Jules Beekwilder, Dilek Boyacioglu, Robert Hall and Ric de Vos

J. Agric. & Food Chemistry, 01/2008 56 (2008) 964-973

Antioxidants, Phenolic Compounds, and Nutritional Quality of Different Strawberry Genotypes

Tulipani S, Mezzetti B, Capocasa F, Bompadre S, Beekwilder J, De Vos RCH, Capanoglu E, Bovy A, Battino M.

J Agric Food Chem., 01/2008 56

Plant Metabolomics and its potential for human nutrition

Hall, R.D., Brouwer, I., Fitzgerald, M.E.

Physiologia Plantarum, 01/2008 132 (2008) 162-175

Production of novel antioxidative phenolic amides through heterologous expression of the plant?s chlorogenic acid biosynthesis genes in yeast

Moglia Andrea, Cinzia Cominoa, Sergio Lanteria, Ric de Vos, Pieter de Waard, Teris A. van Beek, Luca Goitred, Saverio Francesco Rettad, Jules Beekwilder

Metabolic Engineering, 01/2007 12, 223?232

C3?H Isolation and mapping of a C3'H gene (CYP98A49) from globe artichoke, and its expression upon UV-C stress.

Moglia A, Comino C, Portis E, Acquadro A, De Vos RC, Beekwilder J, Lanteri S.

Plant Cell Rep., 01/2007 28:963-974

Practical applications of metabolomics in plant biology

Hall, R.D., Hardy, N.G.

Plant Metabolomics, Methods and Protocols; Methods in Molecular Biology, vlm 860,

The effect of environmental conditions on extracellular protease activity in controlled fermentations of Aspergillus niger

M. Braaksma, A.K. Smilde, M.J. van der Werf and Peter J. Punt

Microbiology, 01/2009 155 (2009) 3430?3439

Comprehensive analysis of the metabolome of Pseudomonas putida S12 grown on different carbon sources

Van der Werf MJ, Overkamp KM, Muilwijk B, Koek MM, van der Werff-van der Vat BJ, Jellema RH, Coulier L, Hankemeier T

Mol Biosyst, 04/2008 4 (2008) 315-27

Tracy-Widom statistic for the largest eigenvalue of autoscaled real matrices

E. Saccenti, J. A. Westerhuis, A. K. Smilde and M. M. W. B. Hendriks

Journal of Chemometrics, 11/2011

Linking biological activity with herbal constituents by systems biology-based approaches: effects of Panax ginseng in type 2 diabetic Goto-Kakizaki rats

Chunxiu Hu, Heng Wei, Hongwei Kong, Jildau Bouwman, Vanessa Gonzalez-Covarrubias, Rob van der Heijden, Theo H. Reijmers, Xu Bao, Elwin R. Verheij, Thomas Hankemeier, Guowang Xu, Jan van der Greef and Mei Wang

Molecular Biosystems, 08/2011

Quantitative profiling of oxylipins via comprehensive LC-MS/MS analysis: Application to patients undergoing cardiac surgery

06/2011

Untargeted metabolite discovery in kinetic data from multi-dose intervention studies

Peters, S., Janssen, H., Vivó-Truyols, G

J. Chromatography A, 05/2011

Nutrikinetics

Velzen, E. van

PhD Thesis, 11/2010

Metabolic profiling of oxylipids at Netherlands Metabolomics Centre

Katrin Strassburg, Annemarie Huijbrechts, Arjan Brenkman, John Newman, Ruud Berger, Thomas Hankemeier, John van Duynhoven, Eric Kalkhoven, Rob Vreeken

06/2010

The Metabolic Fate of Red Wine and Grape Juice Polyphenols in Humans Assessed by Metabolomics

Dorsten, F. van Grün, C., Velzen, E., van, Jacobs, D., Draijer, R., Duynhoven, J. van

Molecular Nutrition and Food Research, 01/2010 54, 1-12

The metabolic fate of polyphenols in the human superorganism

Duynhoven, J. van, Vaughan, E., Jacobs, D, Kemperman, R., Velzen, E. van, Gross, G., Roger, R., Possemiers, S., Smilde, A., Doré, J., Westerhuis,J., Wiele T. van de

PNAS, 01/2010

NMR-based metabonomics approaches for the assessment of the metabolic impact of dietary polyphenols on humans (2009Magnetic Resonance in Food Science

Duynhoven, J. van, Velzen, E. van, Gross, G., Dorsten, F. van, Jacobs, D., Bingham, M. Draijer, R., Mulder, T., Koning, T., Vaughan, E., Wiele, T van der, Westerhuis, J., Smilde, AS.

Magnetic Resonance in Food Science: Challenges in a changing world, 01/2010

Food and Nutritional Science Applications of Magnetic Resonance

Duynhoven, J. van

Encyclopedia of Spectroscopy and Spectrometry, 01/2010 663-670

Novel Approaches for Analysing Gut Microbes and Dietary Polyphenols, Challenges and Opportunities

Kemperman, R., Bolca, S., Roger, L., Vaughan, E

Microbiology, 01/2010 156: 3224-3231

Trend analysis of time-series data: a novel method for untargeted metabolite discovery

Peters, S., Janssen, H., Vivó-Truyols, G.

Anal.Chim.Acta, 01/2010 633: 98-104

Challenges of molecular nutrition research 6: the nutritional phenotype database to store, share and evaluate nutritional systems biology studies

Ommen,Ben van, Jildau Bouwman, Lars O. Dragsted, Christian A. Drevon, Ruan Elliott, Philip Groot, Jim Kaput, et al.

Genes & Nutrition, 01/2010

Non-Digestible Food Ingredients, Colonic Microbiota and the Impact on Gut Health and Immunity: A Role for Metabolomics

Jacobs, D., Gaudier, E., Duynhoven, J. van, Vaughan, E

Current Drug Metabolism, 10/2009 41-54

Parameter selection for peak alignment in chromatographic sample profiling: objective quality indicators and use of control samples

Peters, S., Velzen, E. van, Janssen, H.G.

Anal. Bioanal. Chem, 01/2009 394: 1273-1281

Phenotyping tea consumers by nutrikinetic analysis of polyphenolic end-metabolites

Velzen, E. van, Westerhuis, J., van Duynhoven, J., van Dorsten, F., Jacobs, D., Gruen, C., Duchateau, G., Vis, D., Smilde, A

J. Prot. Res., 01/2009 8 (7): 3317-3330

Multivariate paired data analysis: Multilevel PLSDA versus OPLSDA

Westerhuis J.A., Velzen E.J.J. van, Hoefsloot H.C.J., Smilde A.K.

Metabolomics, 01/2009 1573-3882

1H NMR metabolite profiling of faeces as a tool to assess the impact of nutrition on the human microbiome

Jacobs, D., Deltimple, N., Velzen, E. van, Bingham, M., Vaughan, E., Bingham, M., Duynhoven, J

BioMed, 01/2008 615-626

GC–MS methods for metabolic profiling of microbial fermentation products of dietary polyphenols in human and in vitro intervention studies

Grun, C., Dorsten, F. van, Jacobs, D., Le Belleguic, M., Velzen, E. van, Bingham, M., Janssen, H.G., Duynhoven, J. van

Journal of Chromatography B, 01/2008 871: 212-219

Multilevel data analysis of a human nutritional crossover designed study

Velzen, E. van, Westerhuis, J, Duynhoven, J. van Dorsten, F. van, Hoefsloot, H., Smit, S., Draijer, R., Kroner, C.I., Smilde, A.K.

J.Prot.Res, 01/2008 7 (10): 4483-4491

Assessment of PLSDA crossvalidation

Westerhuis, J., Hoefsloot, H., Smit, S., Vis, D., Smilde, A., Velzen, E. van, Duynhoven, J. van, Dorsten, F. van

Metabolomics , 01/2008 4: 81-89

In vitro bioconversion of polyphenols from black tea and red wine/grape juice by human intestinal microbiota displays strong inter-individual variability

Gross, G., Jacobs, D., Peters, S., Possemiers, S., van Duynhoven, J., Vaughan, E., Van de Wiele, T

Journal of Agriculture and Food Science, 01/2007 58 (18): 10236-10246

Health space visualization and identification of personalized molecular phenotype and treatment responses according to the underlying relevant biological processes

Jildau Bouwman, Jack T.W.E. Vogels, Suzan Wopereis, Carina M. Rubingh, Sabina Bijlsma, Ben van Ommen

BMC Bioinformatics, 01/2007