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Publications from 2012

Pervaporation of ethanol from lignocellulosic fermentation broth

S.S. Gaykawad, Y. Zha, P.J. Punt, J.W. van Groenestijn, L.A.M. van der Wielen, A.J.J. Straathof

Date of publication: 12/2012

Metabolic and transcriptomic changes induced in Arabidopsis by the rhizobacterium Pseudomonas fluorescens SS101

J.E. van de Mortel, R.C.H. de Vos, E. Dekkers, A. Pineda, L. Guillod, K. Bouwmeester, J.J.A. van Loon, M. Dicke, J.M. Raaijmakers

Date of publication: 12/2012

Increase in short‐chain ceramides correlates with an altered lipid organization and decreased barrier function in atopic eczema patients

M. Janssens, J. van Smeden, G.S. Gooris, W. Bras, G. Portale, P.J. Caspers, R.J. Vreeken, T. Hankemeier, S. Kezic, R. Wolterbeek, A.P. Lavrijsen, J.A. Bouwstra

Date of publication: 12/2012

Gut microbial metabolism of polyphenols from black tea and red wine/grape juice is source-specific and colon-region dependent

F.A. van Dorsten, S. Peters, G. Gross, V. Gomez-Roldan, M. Klinkenberg, R.C.H. de Vos, E.E. Vaughan, J.P. van Duynhoven, S. Possemiers, T. van de Wiele, D.M. Jacobs

Date of publication: 11/2012

Ultra-weak photon emission from organisms

E. van Wijk, Y. Yan

Date of publication: 10/2012

Feasibility of electroextraction as versatile sample preconcentration for fast and sensitive analysis of urine metabolites, demonstrated on acylcarnitines

P.W. Lindenburg, U.R. Tjaden, J. van der Greef, T. Hankemeier

Date of publication: 10/2012

OMG: Open Molecule Generator

J.E. Peironcely, M. Rojas-Chertó, D. Fichera, T. Reijmers, L. Coulier, J.-L. Faulon, T. Hankemeier

Date of publication: 09/2012

Characterization of Rheumatoid Arthritis Subtypes Using Symptom Profiles, Clinical Chemistry and Metabolomics Measurements

H.A. van Wietmarschen, W. Dai, A.J. van der Kooij, T.H. Reijmers, Y. Schroën, M. Wang, Z. Xu, X. Wang, H. Kong, G. Xu, T. Hankemeier, J.J. Meulman, J. van der Greef

Date of publication: 09/2012

Tunable ionic mobility filter for depletion zone isotachophoresis

J. Quist, P. Vulto, H.J. van der Linden, T. Hankemeier

Date of publication: 09/2012

Generic framework for high-dimensional fixed-effects ANOVA

A.K. Smilde, M.E. Timmerman, M.M.W.B. Hendriks, J.J. Jansen, H.C. Hoefsloot

Date of publication: 09/2012

Fragmentation trees for the structural characterisation of metabolites

P.T. Kasper, M. Rojas-Chertó, R. Mistrik, T. Reijmers, T. Hankemeier, R.J. Vreeken

Date of publication: 08/2012

MSClust: a tool for unsupervised mass spectra extraction of chromatography-mass spectrometry ion-wise aligned data

Y.M. Tikunov, S. Laptenok, R.D. Hall, A. Bovy, R.C.H. de Vos

Date of publication: 08/2012

Instrument and process independent binning and baseline correction methods for liquid chromatography-high resolution-mass spectrometry deconvolution

S. Krishnan, J.T. Vogels, L. Coulier, R.C. Bas, M.M.W.B. Hendriks, T. Hankemeier, U. Thissen

Date of publication: 08/2012

Chemical identification strategies using liquid chromatography-photodiode array-solid-phase extraction-nuclear magnetic resonance/mass spectrometry

S. Moco, J. Vervoort

Date of publication: 08/2012

On-line large-volume electroextraction coupled to liquid chromatography-mass spectrometry to improve detection of peptides

P.W. Lindenburg, F.W.A. Tempels, U.R. Tjaden, J. van der Greef, T. Hankemeier

Date of publication: 08/2012

Limits of miniaturization: assessing ITP performance in sub-micron and nanochannels

K.G.H. Janssen, J.J. Li, H.T. Hoang, P. Vulto, R. van den Berg, H.S. Overkleeft, J.C.T. Eijkel, N.R. Tas, H.J. van der Linden, T. Hankemeier

Date of publication: 08/2012

Structural elucidation and quantification of phenolic conjugates present in human urine after tea intake

Van der Hooft, J.J.J., De Vos, C.H., Mihaleva, V., Bino, R.J., Ridder, L., De Roo, N., Jacobs, D.M., Van Duynhoven, J.P.M., Vervoort, J.

Date of publication: 07/2012

MetiTree: a web application to organize and process high-resolution multi-stage mass spectometry metabolomics data

M. Rojas-Chertó, M. van Vliet, J.E. Peironcely, R. van Doorn, M. Kooyman, T. te Beek, M.A. van Driel, T. Hankemeier, T. Reijmers

Date of publication: 07/2012

Preparation and Evaluation of Lignocellulosic Biomass Hydrolysates for Growth by Ethanologenic Yeasts

Y. Zha, R. Slomp, J. van Groenestijn, P.J. Punt

Date of publication: 07/2012

Topology of Transcriptional Regulatory Networks: Testing and Improving

D. Hasdemir, G.J. Smits, J.A. Westerhuis, A.K. Smilde

Date of publication: 07/2012

Metabolite Space of Rheumatoid Arthritis

H. van Wietmarschen, J. van der Greef

Date of publication: 07/2012

Solid phase micro-extraction GC-MS analysis of natural volatile components in melon and rice

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

Date of publication: 06/2012

Individual differences in metabolomics: individualised responses and between-metabolite relationships

J.J. Jansen, E. Szymańska, H.C. Hoefsloot, A.K. Smilde

Date of publication: 06/2012

Inferring differences in the distribution of reaction rates across conditions

D.M. Hendrickx, H.C.J. Hoefsloot, M.M.W.B. Hendriks, D.J. Vis, A.B. Canelas, B. Teusink, A.K. Smilde

Date of publication: 05/2012

Metabolite Identification Using Automated Comparison of High-Resolution Multistage Mass Spectral Trees

M. Rojas-Cherto, J.E. Peironcely, P.T. Kasper, J.J.J. van der Hooft, R.C.H. de Vos, R.J. Vreeken, T. Hankemeier, T. Reijmers

Date of publication: 05/2012

Genetic analysis of metabolites in apple fruits indicates an mQTL hotspot for phenolic compounds on linkage group 16

S.A. Khan, P.Y. Chibon, R.C.H. de Vos, B.A. Schipper, E. Walraven, J. Beekwilder, T. van Dijk, R. Finkers, R.G. Visser, E.W. van de Weg, A. Bovy, A. Cestaro, R. Velasco, E. Jacobsen, H.J. Schouten

Date of publication: 05/2012

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.

Date of publication: 03/2012

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

Date of publication: 03/2012

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.

Date of publication: 03/2012

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

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

Date of publication: 03/2012

Global test for metabolic pathway differences between conditions

D.M. Hendrickx, H.C.J. Hoefsloot, M.M.W.B. Hendriks, A.B. Canelas, A.K. Smilde

Date of publication: 03/2012

Detecting Regulatory Mechanisms in Endocrine Time Series Measurements

D.J. Vis, J.A. Westerhuis, H.C.J. Hoefsloot, F. Roelfsema, M.M.W.B. Hendriks, A.K. Smilde

Date of publication: 03/2012

Urine metabolomics combined with the personalized diagnosis guided by Chinese medicine reveals subtypes of pre-diabetes

H. Wei, W. Pasman, C. Rubingh, S. Wopereis, M. Tienstra, J. Schroen, M. Wang, E. Verheij, J. van der Greef

Date of publication: 03/2012

Nano-slit electrospray emitters fabricated by a micro- to nanofluidic via technology

M. Dijkstra, J.W. Berenschot, M.J. de Boer, H.J. van der Linden, T. Hankemeier, T.S.J. Lammerink, R.J. Wiegerink, M. Elwenspoek, N.R. Tas

Date of publication: 03/2012

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

F.M. van der Kloet, F.W. Tempels, N. Ismail, R. van der Heijden, P.T. Kasper, M. Rojas-Cherto, R. van Doorn, G. Spijksma, M. Koek, J. van der Greef, V.P. Mäkinen, C. Forsblom, H. Holthöfer, P.H. Groop, T. Reijmers, T. Hankemeier

Date of publication: 02/2012

Transportomics: screening for substrates of ABC transporters in body fluids using vesicular transport assays

P. Krumpochova, S. Sapthu, J.F. Brouwers, M. de Haas, R.C.H. de Vos, P. Borst, K. van de Wetering

Date of publication: 02/2012

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

Date of publication: 02/2012

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

H. Wei, C. Hu, M. Wang, A.M. van den Hoek, T.H. Reijmers, S. Wopereis, J. Bouwman, R. Ramaker, H.A.A.J. Korthout, M. Vennik, T. Hankemeier, L.M. Havekes, R.F. Witkamp, E.R. Verheij, G. Xu, J. van der Greef

Date of publication: 01/2012

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

Date of publication: 01/2012

Inhibitory compounds in lignocellulosic biomass hydrolysates during hydrolysate fermentation processes

Y. Zha, B. Muilwijk, L. Coulier, P.J. Punt

Date of publication: 01/2012

High-performance liquid chromatography-mass spectrometry analysis of plant metabolites in brassicaceae

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

Date of publication: 01/2012

An efficient hydrophilic interaction liquid chromatography separation of 7 phospholipid classes based on a diol column

C. Zhu, A. Dane, G. Spijksma, M. Wang, J. van der Greef, G.A. Luo, T. Hankemeier, R.J. Vreeken

Date of publication: 01/2012