Research Output

Filter
Chapter
2019

Computational Prediction of Functional MicroRNA–mRNA Interactions

Saçar Demirci, M. D., Yousef, M. & Allmer, J., 12 Jan 2019, Computational Biology of Non-Coding RNA. Lai, X., Gupta, S. K. & Vera, J. (eds.). New York: Springer, p. 175-196 (Methods in Molecular Biology; vol. 1912).

Research output: Chapter in Book/Report/Conference proceedingChapter

5 Citations (Scopus)

Food, nutrition and health in the Netherlands

Gilissen, L. J. W. J., 25 Oct 2019, Nutritional and Health Aspects of Food in Western Europe. Elsevier, p. 85-108 24 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Mass Spectrometry Data Processing

Neumann, S., Yanes, O., Mumm, R. & Franceschi, P., 19 Aug 2019, Metabolomics: Practical Guide to Design and Analysis. Wehrens, R. & Salek, R. (eds.). p. 73-99

Research output: Chapter in Book/Report/Conference proceedingChapter

Measurement Technologies

Yanes, O., Hollywood, K., Mumm, R., Vinaixa, M., Rankin, N., Wehrens, H. R. M. J. & Salek, R., 19 Aug 2019, Metabolomics: Practical Guide to Design and Analysis. Wehrens, R. & Salek, R. (eds.). 1st ed. New York: Chapman and Hall, 38 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2018

3C in maize and arabidopsis

Weber, B., Jamge, S. & Stam, M., 2018, Plant Chromatin Dynamics: Methods and Protocols. Bemer, M. & Baroux, C. (eds.). Humana Press Inc., p. 247-270 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

Identification of in planta protein–protein interactions using IP-MS

Jamge, S., Angenent, G. & Bemer, M., 2018, Plant Chromatin Dynamics: Methods and Protocols. Bemer, M. & Baroux, C. (eds.). Humana Press Inc., p. 315-329 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Laser ablation electrospray ionization-mass spectrometry imaging (LAESI-MS) for spatially resolved plant metabolomics

Etalo, D. W., Díez-Simón, C., de Vos, R. C. H. & Hall, R. D., 15 May 2018, Plant Metabolomics: Methods and Protocols. António, C. (ed.). New York: Humana Press Inc., p. 253-267 (Methods in Molecular Biology; vol. 1778).

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)

Organic seed production, certification and availability: Corp Breeding and cultivation:

Groot, S. P. C. & Raaijmakers, M. H. J. E., 2018, Improving organic crop cultivation. Köpke, U. (ed.). Cambridge, UK: Burleigh Dodds Science Publishing Limited

Research output: Chapter in Book/Report/Conference proceedingChapter

Profiling nucleosome occupancy by MNase-seq: Experimental protocol and computational analysis

Pajoro, A., Muiño, J. M., Angenent, G. C. & Kaufmann, K., 2018, Plant Chromatin Dynamics: Methods and Protocols. Bemer, M. & Baroux, C. (eds.). Humana Press Inc., p. 167-181 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

5 Citations (Scopus)

Unraveling the complex epigenetic mechanisms that regulate gene activity

Bemer, M., 2018, Plant Chromatin Dynamics. Bemer, M. & Baroux, C. (eds.). Humana Press Inc., p. 205-231 (Methods in Molecular Biology; vol. 1675).

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)
2017

Biosynthesis, localization and ecological role of pyrethrins and linked secondary metabolites in pyrethrum

Jongsma, M. A. & Ramirez, A., 2017, 2nd International Symposium on Pyrethrum. International Society for Horticultural Science, Vol. 1169. p. 101-111 (Acta Horticulturae; vol. 1169).

Research output: Chapter in Book/Report/Conference proceedingChapter

Prunus fruit juices

Toydemir, G., Boyacioglu, D., Hall, R. D., Beekwilder, M. J. & Capanoglu, E., 26 May 2017, Innovative Technologies in Beverage Processing. Aguiló-Aguayo, I. & Plaza, L. (eds.). Chichester UK: Wiley, p. 59-77

Research output: Chapter in Book/Report/Conference proceedingChapter

Robust and confident predictor selection in metabolomics

Hageman, J. A., Engel, B., de Vos, C. H., Mumm, R., Hall, R. D., Jwanro, H., Crouzillat, D., Spadone, C. & van Eeuwijk, F. A., 2017, Statistical Analysis of Proteomics, Metabolomics, and Lipidomics Data Using Mass Spectrometry; Frontiers in Probability and the Statistical Sciences. Datta, S. & Mertens, B. J. A. (eds.). Springer, p. 239-257 (Frontiers in Probability and the Statistical Sciences).

Research output: Chapter in Book/Report/Conference proceedingChapter

SELEX-seq: A method to determine DNA binding specificities of plant transcription factors

Smaczniak, C., Angenent, G. C. & Kaufmann, K., 2017, Plant gene regulatory networks: Methods and protocols. Kaufmann, K. & Mueller-Roeber, B. (eds.). Humana Press Inc., Vol. 1629. p. 67-82 (Methods in Molecular Biology - Springer Protocols; vol. 1629).

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

Species-specific genome sequence databases: A practical review

van Dijk, A-J., 2017, Plant genomics databases: Methods and Protocols. van Dijk, A. D. J. (ed.). Humana Press Inc., p. 173-181 (Methods in Molecular Biology; vol. 1533).

Research output: Chapter in Book/Report/Conference proceedingChapter

2016

Cherry Juice

Toydemir, G., Boyacioglu, D., Beekwilder, M. J., Hall, R. D. & Capanoglu, E., 2016, Handbook of Functional Beverages and Human Health. CRC Press, p. 175-185

Research output: Chapter in Book/Report/Conference proceedingChapter

Strategies to reduce or prevent wheat coeliacimmunogenicity and wheat sensitivity through food

Gilissen, L. J. W. J., van der Meer, I. M. & Smulders, M. J. M., 2016, Proceedings of the 29th Meeting, WORKING GROUP on PROLAMIN ANALYSIS and TOXICITY. Koehler, P. (ed.). Freising: Verlag Deutsche Forschungsanstalt für Lebensmittelchemie, p. 41-55

Research output: Chapter in Book/Report/Conference proceedingChapter

Strategies to reduce or prevent wheat coeliac- immunogenicity and wheat sensitivity through food

Gilissen, L. J. W. J., van der Meer, I. M. & Smulders, M. J. M., 2016, Proceedings of the 29th Meeting Working Group on Prolamin Analysis and Toxicity (PWG). Koehler, P. (ed.). Tulln, Austria: WGPAT

Research output: Chapter in Book/Report/Conference proceedingChapter

2015

Bacillus thuringiensis-based Products for Insect Pest Control

de Maagd, R. A., 2015, Principles of Plant-Microbe Interactions : Microbes for Sustainable Agriculture. Lugtenberg, B. (ed.). Springer, p. 185-192 185 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

8 Citations (Scopus)

Characterization of in vivo DNA-binding events of plant transcription factors by ChIP-seq: Experimental protocol and computational analysis

Van Mourik, H., Muiño, J. M., Pajoro, A., Angenent, G. C. & Kaufmann, K., 2015, Plant Functional Genomics: Methods and Protocols: Second Edition. Springer New York LLC, p. 93-121

Research output: Chapter in Book/Report/Conference proceedingChapter

8 Citations (Scopus)

Health Management for Seeds and Other Organic Propagation Material

Koch, E. & Groot, S. P. C., 2015, Plant Diseaes and Their Management in Organic Agriculture. Finckh, M. R., van Bruggen, A. H. C. & Tamm, L. (eds.). Minnesota: The American Phytopathological Society, p. 189-203

Research output: Chapter in Book/Report/Conference proceedingChapter

Literatuurstudie naar het effect van zoutstress op plantenstoffen en de potentiële toegevoegde waarde

van Arkel, J. & van der Meer, I. M., 2015, Zilt Perspectief : kennis en kansen voor teelt en verwerking van gewassen op zilte landbouwgrond rond de Wadden, afgestemd op de unieke natuurlijke en landschappelijke kwaliteiten met aandacht voor educatie en kennisverspreiding: eindverslag. Vos, A. C., Rijsselberghe, A. M. J. & Kieft, H. (eds.). Den Burg: Stichting Ziltperspectief, p. 64-70 81 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Pepper, Sweet (Capsicum annuum)

Heidmann, I. & Boutilier, K. A., 2015, Agrobacterium Protocols: Volume 1 (third edition). Wang, K. (ed.). New York, p. 321-334 368 p. (Methods in Molecular Biology; no. 1223).

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Research tools: Ethylene detection

Cristescu, S. M., Woltering, E. J., Hermans, C., Harren, F. J. M. & te Lintel Hekkert, B., 2015, Ethylene in plants. Wen, C. K. (ed.). Dordrecht: Springer, p. 263-285

Research output: Chapter in Book/Report/Conference proceedingChapter

2014

Fructan Biosynthesis Regulation and the Production of Tailor-Made Fructan in Plants

van Arkel, J., Sévenier, R., Hakkert, J. C., Bouwmeester, H. J., Koops, A. J. & van der Meer, I. M., 2014, Polysaccharides : Natural Fibers in Food and Nutrition. Benkeblia, N. (ed.). CRC Press, p. 1 29 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)

Proteome analysis of orphan plant species, fact or fiction?

Carpentier, S. C. & America, T., 2014, Plant Proteomics: Methods and Protocols. Humana Press Inc., p. 333-346 14 p. (Methods in Molecular Biology; vol. 1072).

Research output: Chapter in Book/Report/Conference proceedingChapter

12 Citations (Scopus)
2013

Biological containment strategies for transgenic crops

de Maagd, R. A. & Boutilier, K. A., 2013, Genetically modified and non-genetically modified food supply chains: Co-existence and traceability. Bertheau, Y. (ed.).

Research output: Chapter in Book/Report/Conference proceedingChapter

Hemiterpenoids and Pyrazines in the Odoriferous Urine of the Maned Wolf

Goodwin, T. E., Songsasen, N., Broederdorf, L. J., Burkert, B. A., Joi Chen, C., Jackson, S. R., Keplinger, K. B., Rountree, M. E., Waldrip, Z. J., Wedell, M. E., Desrochers, L. P., Baker, W. K. & Helsper, J. P. F. G., 2013, Chemical Signals in Vertebrates 12. East, M. L. & Dehnhard, M. (eds.). New York [etc.]: Springer, p. 171-184

Research output: Chapter in Book/Report/Conference proceedingChapter

7 Citations (Scopus)

Induction of Germination

Yoneyama, K., Ruyter-Spira, C. P. & Bouwmeester, H. J., 2013, Parasitic Orobanchaceae: Parasitic Mechanisms and Control Strategies. Joel, D. M. & Gressel, J. (eds.). Berlin: Springer Verlag, p. 167-194

Research output: Chapter in Book/Report/Conference proceedingChapter

15 Citations (Scopus)

Strigolactone Biosynthesis and Biology

Zhang, Y., Haider, I., Ruyter-Spira, C. P. & Bouwmeester, H. J., 2013, Molecular Microbial Ecology of the Rhizosphere: Volume 1 & 2. de Bruijn, F. J. (ed.). Singapore: Wiley, p. 355-371 1328 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

The Large Scale Identification and Quantification of Conjugates of Intact and Gut Microbial Bioconversion Products of Polyphenols.

van der Hooft, J. J. J., de Vos, C. H., Bino, R. J., Mihaleva, V. V., Ridder, L. O., de Roo, N., Jacobs, D. M., van Duynhoven, J. P. M. & Vervoort, J., 2013, Magnetic Resonance in Food Science. Duynhoven, J., Belton, P. S., Webb, G. A. & As, H. (eds.). CBSG/NMC, p. 177-182

Research output: Chapter in Book/Report/Conference proceedingChapter

2012

Acceptance of Natural and Genetically Modified Hypoallergenic Apples by Consumers with an Oral Allergy Syndrome (OAS).

van der Meer, I. M., Schenk, M. F., Fischer, A. R. H., Frewer, L. J., van der Maas, M. P., Smulders, M. J. M. & Gilissen, L. J. W. J., 2012, Multidisciplinary Approaches to Allergies. Gao, Z. S., Shen, H. H., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Zhejiang University Press, p. 401-408 480 p. (Advanced topics in science and technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

Allergen Protein Families and Cross- Reactivity

Gilissen, L. J. W. J. & Gao Zhongshan, 2012, Multidisciplinary Approaches to Allergies. Gao, Z. S., Shen, H. H., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Zhejiang University Press, p. 81-90 480 p. (Advanced topics in science and technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

Explicit treatment of water molecules in data-driven protein-protein docking: the solvated HADDOCKing approach.

Kastritis, P. L., van Dijk, A. D. J. & Bonvin, A. M., 2012, Computational Drug Discovery and Design . Baron, R. (ed.). New York: Springer Science + Business Media, p. 355-374 (Methods in Molecular Biology ; vol. 819).

Research output: Chapter in Book/Report/Conference proceedingChapter

19 Citations (Scopus)

Fruit Allergy and Genetic and Genomic Tools to select Hypoallergenic Fruit Cultivars

Gao Zhongshan, Yang, Z. W. & Gilissen, L. J. W. J., 2012, Multidisciplinary Approaches to Allergies. Gao, Z. S., Shen, H. H., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Zhejiang University Press, p. 359-383 480 p. (Advanced topics in science and technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

High-Performance Liquid Chromatography–Mass Spectrometry Analysis of Plant Metabolites in Brassicaceae

de Vos, C. H., Schipper, A. & Hall, R. D., 2012, Plant metabolomics : methods and protocols. Hardy, N. G. & Hall, R. D. (eds.). p. 111-128 (Methods in molecular biology; no. 860).

Research output: Chapter in Book/Report/Conference proceedingChapter

7 Citations (Scopus)

Immunomodulation by Food

van der Meer, I. M., Mes, J. J., Weijn, A. & Wichers, H. J., 2012, Multidisciplinary Approaches to Allergies. Gao, Z. S., Shen, H. H., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Zhejiang University Press, p. 303-313 480 p. (Advanced topics in science and technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Citation (Scopus)

In Search of Hypoallergenic Birch Trees: Characterization of PR-10 Genes from Eight Betula Species and Detection of Bet v 1 Isoforms in Birch Pollen Using a Combined Genomics-Proteomics Approach

Smulders, M. J. M., Schenk, M. F. & Gilissen, L. J. W. J., 2012, Multidisciplinary Approaches to Allergies. Shen, H. H., Gao, Z. S., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Zhejiang University Press, p. 335-346 480 p. (Advanced topics in science and technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

Kennisbasisthema 7. Technologische ontwikkeling

Janssen, S. J. C. & Angenent, G. C., 2012, Jaarrapportage Kennisbasisonderzoek 2011. [S.l.]: S.n., p. 99-110

Research output: Chapter in Book/Report/Conference proceedingChapter

Open Access

Multidisciplinary Approaches to Allergy Prevention

Gilissen, L. J. W. J., Gao Zhongshan & Chen, Z., 2012, Multidisciplinary Approaches to Allergies. Gao, Z. S., Shen, H. H., Zheng, M., Frewer, L. J. & Gilissen, L. J. W. J. (eds.). Berlin: Springer, p. 33-55 480 p. (Advanced Topics in Science and Technology in China).

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Citation (Scopus)

Practical Applications of Metabolomics in Plant Biology

Hall, R. D. & Hardy, N. W., 2012, Methods in molecular biology: Plant metabolomics. Hardy, N. G. & Hall, R. D. (eds.). London: Humana Press Inc., Vol. 860. p. 1-10 (Methods in molecular biology; vol. 860).

Research output: Chapter in Book/Report/Conference proceedingChapter

8 Citations (Scopus)

Solid Phase Micro-Extraction GC–MS Analysis of Natural Volatile Components in Melon and Rice

Verhoeven, H. A., Jonker, H. H., de Vos, C. H. & Hall, R. D., 2012, Plant metabolomics. Hardy, N. G. & Hall, R. D. (eds.). London, p. 85-99 (Methods in molecular biology; no. 860).

Research output: Chapter in Book/Report/Conference proceedingChapter

10 Citations (Scopus)

Strigolactones: A Cry for Help Results in Fatal Attraction. Is Escape Possible?

Ruyter-Spira, C. P., Lopez-Raez, J. A., Cardoso, C., Charnikhova, T., Matusova, R., Kohlen, W., Jamil, M., Bours, R., Verstappen, F. & Bouwmeester, H. J., 2012, Isoprenoid Synthesis in Plants and Microorganisms. Bach, T. J. & Rohmer, M. (eds.). New York: Springer Science + Business Media, p. 199-211

Research output: Chapter in Book/Report/Conference proceedingChapter

2011

Breeding of Hypoallergenic Fruits

Gao, Z. S. & Gilissen, L. J. W. J., 2011, Breeding for Fruit Quality. Jenks, M. A. & Bebeli, P. J. (eds.). Hoboken, NJ, USA: John Wiley and Sons, p. 105-126

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

Crops and food – a role for metabolomics?

Stewart, D. W., Hall, R. D. & Fraser, P., 2011, The biology of plant metabolomics. Oxford: Blackwell/Wiley, p. 181-217 405 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

22 Citations (Scopus)

Metabolic Pathway Inference from Time Series Data: A Non Iterative Approach

Astola, L. J., Groenenboom, M. A. C., Gomez Roldan, M. V., van Eeuwijk, F. A., Hall, R. D., Bovy, A. G. & Molenaar, J., 2011, Pattern Recognition in Bioinformatics : 6th IAPR International Conference, PRIB 2011, Delft, The Netherlands, 2-4 November 2011. Loog, M. & Wessels, L. (eds.). Berlin [etc.], p. 97-108 (Lecture notes in computer science; no. 7036).

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)

Metabolomics of a model fruit: tomato

de Vos, R. C. H., Hall, R. D. & Moing, A., 2011, The Biology of Plant Metabolomics . Annual Plant Reviews. Oxford: Blackwell/Wiley, p. 109-156 405 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

19 Citations (Scopus)

Microarray-Based Identification of Transcription Factor Target Genes

Gorte, M., Horstman, A., Page, R. B., Heidstra, R., Stromberg, A. & Boutilier, K. A., 2011, Plant Transcription Factors: Methods and Protocols.. Yuan, L. & Perry, S. E. (eds.). p. 119-141 347 p. (Methods in Molecular Biology; no. 754).

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)

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

Allwood, J. W., de Vos, C. H., Moing, A., Deborde, C., Erban, A., Kopka, J., Goodacre, R. & Hall, R. D., 2011, Methods in Systems Biology. Jameson, D., Verma, M. & Westerhoff, H. V. (eds.). p. 299-336 (Methods in Enzymology; no. 500).

Research output: Chapter in Book/Report/Conference proceedingChapter

51 Citations (Scopus)

Plant Metabolomics in a nutshell: Potential and Future Challenges

Hall, R. D., 2011, The biology of plant metabolomics. hall, R. D. (ed.). Oxford: Blackwell/Wiley, Vol. 43. p. 1-24

Research output: Chapter in Book/Report/Conference proceedingChapter

31 Citations (Scopus)