Jan-Peter (Jp) Nap

dr.ir.

    1983 …2020

    Research output per year

    If you made any changes in Pure these will be visible here soon.

    Research Output

    2020

    Farm-scale bio-power-to-methane: Comparative analyses of economic and environmental feasibility

    Bekkering, J., Zwart, K., Martinus, G., Langerak, J., Tideman, J., van der Meij, T., Alberts, K., van Steenis, M. & Nap, J. P., 10 Mar 2020, In : International Journal of Energy Research. 44, 3, p. 2264-2277 14 p.

    Research output: Contribution to journalArticleAcademicpeer-review

    2018

    Corrigendum: Towards recommendations for metadata and data handling in plant phenotyping

    Krajewski, P., Chen, D., Ćwiek, H., Van Dijk, A. D. J., Fiorani, F., Kersey, P., Klukas, C., Lange, M., Markiewicz, A., Nap, J. P., Van Oeveren, J., Pommier, C., Scholz, U., Van Schriek, M., Usadel, B. & Weise, S., 24 Mar 2018, In : Journal of Experimental Botany. 69, 7, p. 1819-1819

    Research output: Contribution to journalComment/Letter to the editorAcademic

    Open Access

    pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment

    Warris, S., Timal, N. R. N., Kempenaar, M., Poortinga, A. M., van de Geest, H., Varbanescu, A. L. & Nap, J. P., 1 Jan 2018, In : PLoS ONE. 13, 1, e0190279.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    4 Citations (Scopus)
    2017

    Similarities between plant traits based on their connection to underlying gene functions

    Nap, J. P., Sanchez-Perez, G. F. & van Dijk, A-J., 2017, In : PLoS ONE. 12, 8, e0182097.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    2016

    Compact tomato seedlings and plants upon overexpression of a tomato chromatin remodelling ATPase gene

    Folta, A., Bargsten, J. W., Bisseling, T., Nap, J. P. H. & Mlynarova, L., 2016, In : Plant Biotechnology Journal. 14, 2, p. 581-591

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    3 Citations (Scopus)
    2015

    Flexible, fast and accurate sequence alignment profiling on GPGPU with PaSWAS

    Warris, S., Yalcin, F., Jackson, K. J. & Nap, J. P. H., 2015, In : PLoS ONE. 10, 4, 13 p., e0122524.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    8 Citations (Scopus)

    Reduced seed germination in Arabidopsis over-expressing SWI/SNF2 ATPase genes

    Leeggangers, H. A. C. F., Folta, A., Muras, A., Nap, J. P. H. & Mlynarova, L., 2015, In : Physiologia Plantarum. 153, 2, p. 318-326

    Research output: Contribution to journalArticleAcademicpeer-review

    6 Citations (Scopus)

    Towards recommendations for metadata and data handling in plant phenotyping

    Krajewski, P., Chen, D., Cwiek, H., van Dijk, A. D. J., Fiorani, F., Kersey, P., Klukas, C., Lange, M., Markiewicz, A., Nap, J. P. H., van Oeveren, J., Pommier, P., Scholz, U., van Schriek, M., Usadel, B. & Weise, S., 2015, In : Journal of Experimental Botany. 66, 18, p. 5417-5427

    Research output: Contribution to journalArticleAcademicpeer-review

    71 Citations (Scopus)
    2014

    Biological process annotation of proteins across the plant kingdom

    Bargsten, J. W., Severing, E. I., Nap, J. P. H., Sanchez Perez, G. F. & van Dijk, A. D. J., 2014, In : Current Plant Biology. 1, p. 73-82

    Research output: Contribution to journalArticleAcademicpeer-review

    6 Citations (Scopus)

    Over-expression of Arabidopsis AtCHR23 chromatin remodeling ATPase results in increased variability of growth and gene expression

    Folta, A., Severing, E. I., Krauskopf, J., van de Geest, H. C., Verver, J., Nap, J. P. H. & Mlynarova, L., 2014, In : BMC Plant Biology. 14, 18 p., 76.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    13 Citations (Scopus)

    Prioritization of candidate genes in QTL regions based on associations between traits and biological processes

    Bargsten, J. W., Nap, J. P. H., Sanchez Perez, G. F. & van Dijk, A. D. J., 2014, In : BMC Plant Biology. 14, 330.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    18 Citations (Scopus)
    2013

    Snf2 Family Gene Distribution in Higher Plant Genomes Reveals DRD1 Expansion and Diversification in the Tomato Genome

    Bargsten, J. W., Folta, A., Mlynárová, L. & Nap, J. P. H., 2013, In : PLoS ONE. 8, 11, 11 p., e81147.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    7 Citations (Scopus)

    Unexpectedly rapid IS1 transposition into an Arabidopsis chromatin remodeling gene

    Rogowski, K. J., Folta, A., Bargsten, J. W., Nap, J. P. H. & Mlynarova, L., 2013, In : Transgenic Research. 22, 4, p. 869-871

    Research output: Contribution to journalEditorialAcademicpeer-review

    2011

    Epigenetics, an update

    Nap, J. P. H. & Geurts van Kessel, A., 2011, Wageningen: Plant Research International. (Rapport / Plant Research International; no. 397)

    Research output: Book/ReportReportProfessional

    Open Access

    Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis

    Goodwin, S. B., Ben M'Barek, S., Dhillon, B., Wittenberg, A. H. J., Crane, C. F., Hane, J. K., Foster, A. J., van der Lee, T. A. J., Grimwood, J., Aerts, A., Antoniw, J., Bailey, A., Bluhm, B., Bowler, J., Bristow, J., van der Burgt, A., Canto-Canché, B., Churchill, A. C. L., Conde-Ferràez, L., Cools, H. J. & 37 others, Coutinho, P. M., Csukai, M., Dehal, P., de Wit, P. J. G. M., Donzelli, B., van de Geest, H. C., van Ham, R. C. H. J., Hammond-Kosack, K. E., Henrissat, B., Kilian, A., Kobayashi, A. K., Koopmann, E., Kourmpetis, Y., Kuzniar, A., Lindquist, E., Lombard, V., Maliepaard, C. A., Martins, N., Mehrabi, A., Nap, J. P. H., Ponomarenko, A., Rudd, J. J., Salamov, A., Schmutz, J., Schouten, H. J., Shapiro, H., Stergiopoulos, I., Torriani, S. F. F., Tu, H., de Vries, R. P., Waalwijk, C., Ware, S. B., Wiebenga, A., Zwiers, L. H., Oliver, R. P., Grigoriev, I. V. & Kema, G. H. J., 2011, In : Plos Genetics. 7, 6, 17 p., e1002070.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    322 Citations (Scopus)
    2010

    An integrated genome wide genetic map of sequenced NBS-LRR disease resistance gene homologues (RGH) and resistance loci in potato

    Bakker, E. H., Borm, T. J. A., Prins, J. C. P., van der Geest, A. H. M., van der Vossen, E., Uenk, G. E., Sabatino, G. J. H., Arens, M. J. B., Nap, J. P. H., de Boer, J. M., van Eck, H., te Lintel Hekkert, B., van Ham, R. C. H. J., Vossen, J., van der Linden, G., Muskens, M., Allefs, S., Bakker, J. & Goverse, A., 2010, Potato breeding after the completion of the dna sequence of the potato genome, EUCARPIA - EAPR joint meeting, Wageningen, The Netherlands, 27 - 30 June, 2010. Wageningen: Eucarpia, p. 53-53

    Research output: Chapter in Book/Report/Conference proceedingAbstractAcademic

    2009

    In silico miRNA prediction in metazoan genomes: balancing between sensitivity and specificity

    van der Burgt, A., Fiers, M. W. E. J., Nap, J. P. H. & van Ham, R. C. H. J., 2009, In : BMC Genomics. 10, 24 p., 204.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    29 Citations (Scopus)
    2007

    A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat

    Alberts, R., Terpstra, P., Hardonk, M., Bystrykh, L. V., de Haan, G., Breitling, R., Nap, J. P. H. & Jansen, R. C., 2007, In : BMC Bioinformatics. 8, 10 p., 132.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    11 Citations (Scopus)

    Intragenic vectors for gene transfer without foreign DNA

    Conner, A. J., Barrell, P. J., Baldwin, S. J., Lokerse, A. S., Cooper, P. A., Erasmuson, A. K., Nap, J. P. H. & Jacobs, J. M. E., 2007, In : Euphytica. 154, 3, p. 341-353

    Research output: Contribution to journalArticleAcademicpeer-review

    41 Citations (Scopus)

    Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains

    Ren, X. Y., Stiekema, W. J. & Nap, J. P. H., 2007, In : Plant Molecular Biology. 65, 1-2, p. 205-217

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    23 Citations (Scopus)

    The (epi)genetics of human synovial sarcoma

    de Bruijn, D. R. H., Nap, J. P. H. & Kessel, A. G., 2007, In : Genes Chromosomes and Cancer. 46, 2, p. 107-117

    Research output: Contribution to journalArticleAcademicpeer-review

    31 Citations (Scopus)

    The SWI/SNF chromatin-remodeling gene AtCHR12 mediates temporary growth arrest in Arabidopsis thaliana upon perceiving environmental stress

    Mlynarova, L., Nap, J. P. H. & Bisseling, T., 2007, In : The Plant Journal. 51, 5, p. 874-885

    Research output: Contribution to journalArticleAcademicpeer-review

    77 Citations (Scopus)
    2006

    Directed microspore-specific recombination of transgenic alleles to prevent pollen-mediated transmission of transgenes

    Mlynarova, L., Conner, A. J. & Nap, J. P. H., 2006, In : Plant Biotechnology Journal. 4, 4, p. 445-452

    Research output: Contribution to journalArticleAcademicpeer-review

    71 Citations (Scopus)

    DNAVis: interactive visualization of comparative genome annotations

    Fiers, M. W. E. J., van de Wetering, H., Peeters, T. H. J. M., van Wijk, J. J. & Nap, J. P. H., 2006, In : Bioinformatics. 22, 3, p. 354-355

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    6 Citations (Scopus)

    Epigenetics in context : literatuurrapport in opdracht van COGEM

    Nap, J. P. H. & Geurts van Kessel, A. H. M., 2006, Wageningen: Plant Research International. 58 p. (Note / Plant Research International; no. 393)

    Research output: Book/ReportReportProfessional

    Open Access

    In plants, highly expressed genes are least compact

    Ren, X. Y., Vorst, O. F. J., Fiers, M. W. E. J., Stiekema, W. J. & Nap, J. P. H., 2006, In : Trends in Genetics. 22, 10, p. 528-532

    Research output: Contribution to journalArticleAcademicpeer-review

    95 Citations (Scopus)

    In silico prediction of potential allergenicity of proteins according to the FAO/WHO guidelines with the help of Allermatch

    Fiers, M. W. E. J., Kleter, G. A., Peijnenburg, A. A. C. M., Nijland, H., Nap, J. P. H. & van Ham, R. C. H. J., 2006, Allergy Matters: new approaches to allergy prevention and management. Gilissen, L. J. W. J., Wichers, H. J., Savelkoul, H. F. J. & Bogers, R. J. (eds.). Dordrecht: Springer, p. 107-118

    Research output: Chapter in Book/Report/Conference proceedingConference paperAcademic

    Open Access

    Transgenic plants that make non-transgenic pollen

    Mlynarova, L. & Nap, J. P. H., 2006, In : ISB News Report. 3 p.

    Research output: Contribution to journalArticleProfessional

    Open Access
    2005

    Local coexpression domains of two to four genes in the genome of Arabidopsis

    Ren, X. Y., Fiers, M. W. E. J., Stiekema, W. J. & Nap, J. P. H., 2005, In : Plant Physiology. 138, 2, p. 923-934

    Research output: Contribution to journalArticleAcademicpeer-review

    43 Citations (Scopus)

    Tentacles of in vitro-grown round-leaf sundew (Drosera rotundifolia L.) show induction of chitinase activity upon mimicking the presence of prey

    Matusikova, I., Salaj, J., Moravcikova, J., Mlynarova, L., Nap, J. P. H. & Libantova, J., 2005, In : Planta. 222, 6, p. 1020-1027

    Research output: Contribution to journalArticleAcademicpeer-review

    39 Citations (Scopus)

    Wageningen Arabidopsis thaliana Database (WAtDB): a novel resource for plant genome research

    Adamse, P. & Nap, J. P. H., 2005, Book of Abstracts of the Springschool Bioinformatics, Data Triple I: information, integration, interpretation. Congress Centre Hotel De Wageningse Berg, Wageningen, The Netherlands, 31 March 2004 - 2 April 2004. p. 23

    Research output: Chapter in Book/Report/Conference proceedingAbstract

    2004

    Allermatch, a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines

    Fiers, M. W. E. J., Kleter, G. A., Nijland, H., Peijnenburg, A. A. C. M., Nap, J. P. H. & van Ham, R. C. H. J., 2004, In : BMC Bioinformatics. 5, 6 p., 133.

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    88 Citations (Scopus)

    Bioinformatics for biosafety: predicting the potential allergenicity of GM food

    Stiekema, W. J. & Nap, J. P. H., 2004, Genomics for Biosafety in Plant Biotechnology. Nap, J. P., Atanassov, A. & Stiekema, W. J. (eds.). Amsterdam, p. 98-114 (NATO Science Series; no. 359).

    Research output: Chapter in Book/Report/Conference proceedingChapter

    Chromosomal co-expression domains in the Arabidopsis thaliana genome

    Ren, X. Y., Fiers, M. W. E. J., Nap, J. P. H. & Stiekema, W. J., 2004, Book of Abstracts Congress Centre Hotel De Wageningse Berg, Wageningen, The Netherlands, 31 March 2004 - 2 April 2004. p. 26

    Research output: Chapter in Book/Report/Conference proceedingAbstractAcademic

    Chromosomal co-expression domains in the Arabidopsis thaliana genome

    Ren, X. Y., Fiers, M. W. E. J., Nap, J. P. H. & Stiekema, W. J., 2004.

    Research output: Contribution to conferenceAbstractAcademic

    Genomics for Biosafety in Plant Biotechnology

    Nap, J. P. H. (ed.), Atanassov, A. (ed.) & Stiekema, W. J. (ed.), 2004, Amsterdam: IOS Press. 247 p. (NATO science series : Series I, Life and behavioural sciences; no. vol. 359)

    Research output: Book/ReportBook editingAcademic

    Intragenic vectors for developing non-transgenic GM plants

    Conner, A. J., Barrell, P. J., Jacobs, J. M. E., Baldwin, S. J., Lokerse, A. S., Ashby, J. W. & Nap, J. P. H., 2004.

    Research output: Contribution to conferenceAbstractAcademic

    Intragenic vectors for developing non-transgenic GM plants

    Conner, A. J., Barrell, P. J., Jacobs, J. M. E., Baldwin, S. J., Lokerse, A. S., Ashby, J. W. & Nap, J. P. H., 2004.

    Research output: Contribution to conferenceAbstractAcademic

    Regulating gene expression: surprises still in store

    Jansen, R. C. & Nap, J. P. H., 2004, In : Trends in Genetics. 20, 5, p. 223-225

    Research output: Contribution to journalArticleAcademicpeer-review

    21 Citations (Scopus)

    The insectivorous sundew (Drosera rotundifolia, L.) might be a novel source of PR genes for biotechnology

    Matusikova, I., Libantova, J., Moravcikova, J., Mlynarova, L. & Nap, J. P. H., 2004, In : Biologia. 59, 6, p. 719-725

    Research output: Contribution to journalArticleAcademicpeer-review

    Open Access
    6 Citations (Scopus)

    Wageningen Arabidopsis thaliana Database (WAtDB): a novel resource for plant genome research

    Adamse, P. & Nap, J. P. H., 2004.

    Research output: Contribution to conferenceAbstractAcademic

    2003

    A self-excising Cre recombinase allows efficient recombination of multiple ectopic heterospecific lox sites in transgenic tobacco

    Mlynarova, L. & Nap, J. P. H., 2003, In : Transgenic Research. 12, 1, p. 45-57

    Research output: Contribution to journalArticleAcademicpeer-review

    29 Citations (Scopus)

    De kleren van de keizer. Heeft de biotech-discussie in Nederland wat om het lijf gehad?

    Nap, J. P. H., 2003, In : Spil. 2003, p. 191-192

    Research output: Contribution to journalArticleProfessional

    FABIB: Farm Animal Bioinformatics Platform

    van Wijk, H. J., Rattink, A. P., Mullaart, E., te Lintel Hekkert, B., Harlizius, B., Groenen, M. A. M., Bink, M. C. A. M., Georges, M., Leunissen, J., Merks, J. W. M., Albers, G. A. & Nap, J. P. H., 2003.

    Research output: Contribution to conferenceAbstractAcademic

    FABIP: A Farm Animal Bioinformatics Platform

    Rattink, A. P., van Wijk, H. J., Mullaart, E., te Lintel Hekkert, B., Harlizius, B., Groenen, M. A. M., Bink, M. C. A. M., Georges, M., Leunissen, J. A. M., Merks, J., Albers, G. A. & Nap, J. P. H., 2003, Book of Abstracts 3rd European Poultry Genetics Symposium, Wageningen, the Netherlands, 17-19 September 2003. p. 77

    Research output: Chapter in Book/Report/Conference proceedingAbstractAcademic

    Genetic transformation of Slovak cultivar of potato (Solanum tuberosum L.): efficiency and the behavior of the transgene

    Moravcikova, J., Libantova, J., Matusikova, I., Libiakova, G., Nap, J. P. H. & Mlynarova, L., 2003, In : Biologia. 58, 6, p. 1075-1080

    Research output: Contribution to journalArticleAcademicpeer-review

    5 Citations (Scopus)

    Seed-expressed fluorescent proteins as versatile tools for easy (co)transformation and high-throughput funtional genomics in Arabidopsis

    Stuitje, A. R., Verbree, E. C., van der Linden, K. H., Mietkiewska, E. M., Nap, J. P. H. & Kneppers, T. J. A., 2003, In : Plant Biotechnology Journal. 1, 4, p. 301-309

    Research output: Contribution to journalArticleAcademicpeer-review

    The presence of a chromatin boundary appears to shield a transgene in tobacco from RNA silencing

    Mlynarova, L., Hricova, A., Loonen, A. & Nap, J. P. H., 2003, In : The Plant Cell. 15, p. 2203-2217

    Research output: Contribution to journalArticleAcademicpeer-review

    31 Citations (Scopus)