Herman Spaink
Hoogleraar
- Naam
- Prof. dr. H.P. Spaink
- Telefoon
- 071 5275055
- h.p.spaink@biology.leidenuniv.nl
- ORCID iD
- 0000-0003-4128-9501
Voor meer informatie, zie de Engelse versie.
Nieuws
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Verhaal met een staartje: zo laat de tokay gekko een compleet nieuw lichaamsdeel groeien -
Software die de analyse van bacterie-genomen veel eenvoudiger maakt -
Simulatie van de babydarm doet voorspellingen over optimale melk -
Leids onderzoek uit de brand – met deze Indonesische universiteit komt de oplossing voor tbc dichterbij -
Samenwerking van instituten tegen TBC in het Leidsch Dagblad -
Leidse onderzoekers slaan handen ineen tegen tuberculose
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Miljoenensubsidie om biologische klok gezond te houden -
Wetenschappers vinden sterke aanwijzingen dat de tering voor alle organismen hetzelfde is -
Hoe mammoetpoep bijdraagt aan antibioticaonderzoek -
EU wijst 18 miljoen euro toe aan onderzoek naar nieuwe antibiotica -
Proactieve persoonlijkheid heeft sterker waak-slaapritme -
Ziektes bestrijden met goede bacteriën -
Nieuwe wetenschappelijk directeur voor het Instituut Biologie Leiden -
Instituut Biologie Leiden beoordeeld als excellent -
Universiteit breidt samenwerking met Mexico uit -
Op naar een leefbare toekomst -
Science faculteiten van Universitas Indonesie en Universiteit Leiden versterken samenwerking -
Delegatie van de Faculteit W&N bezoekt Indonesië -
Afweer tuberculose onder de loep -
Insecteneieren niet zo weerloos als gedacht -
Feestelijke uitreiking Propedeusediploma’s -
Supersnelle analyse van ziekten in zebravis model met nieuw meetapparaat -
Science alumni verkennen onderzoeksmethodes binnen de biologie -
LUF subsidie voor tuberculoseonderzoek bij het Instituut Biologie Leiden -
Snel zebravissen injecteren -
NWO subsidieert onderzoeksvoorzieningen -
Minister Verburg bekijkt Leids palingonderzoek
Oud-promovendi
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Luthfi Nurhidayat -
Raini Diah Susanti
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Shixiong Cheng
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Doris van Bergeijk
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Ralf Boland
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Gabriela Arias Alpízar
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Leonie van Steijn
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Xudong Ouyang
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Wanbin Hu
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Junling He
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M. Febriyanti
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Yi Ding
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Tania Vazquez Faci
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Hans de Bekker
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Alexander Hale
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Vincenzo Torraca
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Kongju Zhu
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Shuxin Yang
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Wouter Jurjen Veneman
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Daniëlle Vlecken
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Rohola Hosseini
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Hanan Rian
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Erica Benard
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Chris Jacobs
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Michiel van der Vaart
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Erik Burgerhout
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Zakia Kanwal
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Chao Cui
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Antonia Chatzopoulou Chatzi
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Joost van Soest
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Inês João dos Santos Marques
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Shuning He
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Peter Racz
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Oliver Stockhammer
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Anita Ordas
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Sandra de Keizer
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Suzanne Kuijt
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A. Agalou
Hoogleraar
- Faculteit der Wiskunde en Natuurwetenschappen
- IBL
- Animal Sciences
- Nurhidayat L., Benes V., Blom S., Gomes I., Firdausi N., Bakker M.A.G. de, Spaink H.P. & Richardson M.K. (2025), Tokay gecko tail regeneration involves temporally collinear expression of HOXC genes and early expression of satellite cell markers, BMC Biology 23(1): 6.
- Singer R., Hu W., Liu L., Groot H.J.M., Spaink H.P. & Alia A. (2025), Non-Invasive Regional Neurochemical Profiling of Zebrafish Brain Using Localized Magnetic Resonance Spectroscopy at 28.2 T, Molecules 30(21): 4320.
- Guerrero Egio G., Pintado A., Bretscher K.M., Arias-Giraldo L.M., Paulson J.N., Spaink H.P., Claessen D., Ramos C., Cazorla F.M., Medema M.H., Raaijmakers J.M. & Carrion Bravo V.J. (2024), bacLIFE: a user-friendly computational workflow for genome analysis and prediction of lifestyle-associated genes in bacteria, Nature Communications 15: 2072.
- Singer R., Oganezova I., Hu W., Liu L., Ding Y., Groot H.J.M. de, Spaink H.P. & Alia A. (2024), Ultrahigh field diffusion magnetic resonance imaging uncovers intriguing microstructural changes in the adult zebrafish brain caused by Toll‐like receptor 2 genomic deletion, NMR in Biomedicine 37(10): e5170.
- Singer R., Oganezova I., Hu W., Ding Y., Papaioannou A., Groot H.J.M. de, Spaink H.P. & Alia A. (2024), Unveiling the exquisite microstructural details in Zebrafish brain non-invasively using magnetic resonance imaging at 28.2 T, Molecules 29(19): 4637.
- Bergeijk D.A. van, Augustijn H.E., Elsayed S.S.M.A., Willemse J.J., Carrion Bavo V.J., Du C., Urem M., Grigoreva L.V., Cheprasov M.Y., Grigoriev S., Jansen H., Wintermans B., Budding A.E., Spaink H.P., Medema M.H. & Wezel G.P. van (2024), Taxonomic and metabolic diversity of Actinomycetota isolated from faeces of a 28,000‐year‐old mammoth, Environmental Microbiology 26(2): e16589.
- Kilinç G., Boland R., Heemskerk M.T., Spaink H.P., Haks M.C., van der Vaart M., Ottenhoff T.H.M., Meijer A.H. & Saris A. (2024), Host-directed therapy with amiodarone in preclinical models restricts mycobacterial infection and enhances autophagy, Microbiology Spectrum 12(8): e00167-24.
- Dirks R.P., Ordas A., Jong-Raadsen S., Brittijn S.A., Haks M.C., Henkel C.V., Oravcova K., Racz P. I., Tuinhof-Koelma N., Korzeniowska nee Wiweger M.I., Gillespie S.H., Meijer A.H., Ottenhoff T.H.M., Jansen H.J. & Spaink H.P. (2024), The human pathogen Mycobacterium tuberculosis and the fish Pathogen Mycobacterium marinum trigger a core set of late innate immune response genes in zebrafish larvae, Biology 13(9): 688.
- Antunes S.S., Forn Cuní G., Remeiro N.C., Spaink H.P., Verbeek F.J. & Muzitano M.F. (2024), Embryonic and larval zebrafish models for the discovery of new bioactive compounds against tuberculosis, Drug Discovery Today 29(11): 104163.
- Hu W., Koch B.E.V., Lamers G.E.M., Forn-Cuní G. & Spaink H.P. (2023), Specificity of the innate immune responses to different classes of non-tuberculous mycobacteria, Frontiers in Immunology 13: 1075473.
- Allers M., Bakker P.A., Hoeksma J., Spaink H.P. & Hertog J. den (2023), Loss of Shp1 impairs myeloid cell function and causes lethal inflammation in zebrafish larvae, Disease Models & Mechanisms 16(2): dmm049715.
- Zhu K., Spaink H.P. & Durston A.J. (2023), Patterning of the vertebrate head in time and space by BMP signaling, The International Journal of Developmental Biology 11(3): 31.
- Boland R., Heemskerk M.T., Forn-Cuní G., Korbee C.J., Walburg K.V., Esselink J.J., Carvalho dos Santos C., Waal A.M. de, Hoeven D.C.M. van der, Sar E. van der, Ries A.S. de, Xie J., Spaink H.P., Vaart M. van der, Haks M.C., Meijer A.H. & Ottenhoff T.H.M. (2023), Repurposing tamoxifen as potential host-directed therapeutic for tuberculosis, mBio 14(1): e03024.
- Hu W., Liu L., Forn-Cuní G., Ding Y., Alia A. & Spaink H.P. (2023), Transcriptomic and metabolomic studies reveal that toll-like receptor 2 has a role in glucose-related metabolism in unchallenged zebrafish larvae (Danio rerio), Biology 12(2): 323.
- Eeza M.N.H., Singer R., Ding Y., He J., Zuberi Z., Baelde H.J., Groot H.J.M. de, Matysik J., Spaink H.P. & Alia A. (2023), Probing microstructural changes in muscles of leptin-deficient zebrafish by non-invasive ex-vivo magnetic resonance microimaging, PLoS ONE 18(4): e0284215.
- Hu W. & Spain H.P. (2022), The role of TLR2 in infectious diseases caused by mycobacteria: from cell biology to therapeutic target, Biology 11(2): 246.
- Mehta K.M., Spaink H.P., Ottenhoff T.H.M., Graaf P.H. van der & Hasselt J.G.C. van (2022), Host-directed therapies for tuberculosis: quantitative systems pharmacology approaches, Trends in Pharmacological Sciences 43(4): 293-304.
- Bergeijk D.A. van, Elsayed S.S.M.A., Du C., Nuñez Santiago I., Roseboom A.M., Zhang L., Carrion Bravo V.J., Spaink H.P. & Wezel G.P. van (2022), The ubiquitous catechol moiety elicits siderophore and angucycline production in Streptomyces, Communications Chemistry 5: 14.
- Gazzi T., Brennecke B., Atz K., Korn C., Sykes D., Forn-Cuni G., Pfaff P., Sarott R.C., Westphal M.V., Mostinski Y., Mach L., Wasinska-Kalwa M., Weise M., Hoare B.L., Miljuš T., Mexi M., Roth N., Koers E.J., Guba W., Alker A., Rufer A.C., Kusznir E.A., Huber S., Raposo C., Zirwes E.A., Osterwald A., Pavlovic A., Moes S., Beck J., Nettekoven M., Benito-Cuesta I., Grande T., Drawnel F., Widmer G., Holzer D., Wel T. van der, Mandhair H., Honer M., Fingerle J., Scheffel J., Broichhagen J., Gawrisch K., Romero J., Hillard C.J., Varga Z.V., Stelt M. van der, Pacher P., Gertsch J., Ullmer C., McCormick P.J., Oddi S., Spaink H.P., Maccarrone M., Veprintsev D.B., Carreira E.M., Grether U. & Nazaré M. (2022), Detection of cannabinoid receptor type 2 in native cells and zebrafish with a highly potent, cell-permeable fluorescent probe, Chemical Science 13(19): 5539-5545.
- Ding Y., Haks M.C., Eeden S.J.F. van den, Ottehoff T.H.M., Harms A.C., Hankemeier T., Eeza M.N.H., Matysik J., Alia A. & Spaink H.P. (2022), Leptin mutation and mycobacterial infection lead non-synergistically to a similar metabolic syndrome, Metabolomics 18(8): 67.
- Driessen M., Plas-Duijvesteijn S. van der, Kienhuis A.S., Brandhof E.J. van den, Roodbergen M., Water B. van de, Spaink H.P., Palmblad M., Ven L.T.M. van der & Pennings J.L.A. (2022), Identification of proteome markers for drug-induced liver injury in zebrafish embryos, Toxicology 477: 153262.
- Hertiani T., Utami D., Utami Tunjung Pratiwi S., Spaink H.P. & Haniastuti T. (2021), Antibiofilm effect of C-10 massoia lactone toward polymicrobial oral biofilms, Journal of Advanced Pharmaceutical Technology & Research 12(1): 89.
- Saxena S., Spaink H.P. & Forn-Cuni G. (2021), Drug resistance in nontuberculous mycobacteria: mechanisms and models, Biology 10(2): 96.
- Meyer A., Schloissnig S., Franchini P., Kang D., Woltering J.M., Irisarri I., Wong W.Y., Nowoshilow S., Kneitz S., Kawaguchi A., Fabrizius A., Xiong P.W., Dechaud C., Spaink H.P., Volff J.N., Simakov O., Burmester T., Tanaka E.M. & Schartl M. (2021), Giant lungfish genome elucidates the conquest of land by vertebrates, Nature 590: 284-289.
- Liem M., Regensburg-Tuïnk T., Henkel C., Jansen H. & Spaink H. (2021), Microbial diversity characterization of seawater in a pilot study using Oxford Nanopore Technologies long-read sequencing, BMC Research Notes 14(1): 42.
- Leijten N.M., Bakker P.A, Spaink H.P., Hertog J. den & Lemeer S. (2021), Thermal proteome profiling in zebrafish reveals effects of napabucasin on retinoic acid metabolism, Molecular and Cellular Proteomics 20: 100033.
- He J., Ding Y., Nowik N., Jager C., Eeza M.N.H., Alia A., Baelde H.J. & Spaink H.P. (2021), Leptin deficiency affects glucose homeostasis and results in adiposity in zebrafish, Journal of Endocrinology 249(2): 125-134.
- Ding Y., Haks M.C., Forn Cuní G., He J., Nowik N., Harms A.C., Hankemeier T., Eeza M.N.H., Matysik J., Alia A. & Spaink H.P. (2021), Metabolomic and transcriptomic profiling of adult mice and larval zebrafish leptin mutants reveal a common pattern of changes in metabolites and signaling pathways, Cell & Bioscience 11(1): 126.
- Hu W., Steijn L. van, Li C., Verbeek F.J., Cao L., Merks R.M.H. & Spaink H.P. (2021), A novel function of TLR2 and MyD88 in the regulation of leukocyte cell migration behavior during wounding in zebrafish larvae, Frontiers in Cell and Developmental Biology 9: 624571.
- Keij F.M., Koch B.E.V., Lozano Vigario F., Simons S.H.P., Hasselt J.G.C. van, Knibbe C.A.J., Spaink H.P., Reiss I.K.M. & Krekels E.H.J. (2021), Zebrafish larvae as experimental model to expedite the search for new biomarkers and treatments for neonatal sepsis, Journal of Clinical and Translational Science 5(1): e140.
- Nowik N., Prajsnar T.K., Przyborowska A., Rakus K., Sienkiewicz W., Spaink H.P. & Podlasz P. (2021), The role of galanin during bacterial infection in larval zebrafish, Cells 10(8): 2011.
- Koch B.E.V., Spaink H.P. & Meijer A.H. (2021), A quantitative in vivo assay for craniofacial developmental toxicity of histone deacetylases, Toxicology Letters 342: 20-25.
- Hosseini R., Lamers G.E.M., Bos E., Hogendoorn P.C.W., Koster A.J., Meijer A.H., Spaink H.P. & Schaaf M.J.M. (2021), The adapter protein Myd88 plays an important role in limiting mycobacterial growth in a zebrafish model for tuberculosis, Virchows Archiv 479(2): 265-275.
- Vrieling F., Kostidis S., Spaink H.P., Haks M.C., Mayboroda O.A., Ottenhoff T.H.M. & Joosten S.A. (2020), Analyzing the impact of Mycobacterium tuberculosis infection on primary human macrophages by combined exploratory and targeted metabolomics, Scientific Reports 10(1): 7085.
- Dervisi I., Valassakis C., Agalou A., Papandreou N., Podia V., Haralampidis K., Iconomidou V.A., Kouvelis V.N., Spaink H.P. & Roussis A. (2020), Investigation of the interaction of DAD1-LIKE LIPASE 3 (DALL3) with Selenium Binding Protein 1 (SBP1) in Arabidopsis thaliana, Plant Science 291: 110357.
- Wentzel A.S., Petit J., Veen W.G. van, Fink I.R., Scheer M.H., Piazzon M.C., Forlenza M., Spaink H.P. & Wiegertjes G.F. (2020), Transcriptome sequencing supports a conservation of macrophage polarization in fish, Scientific Reports 10: 13470.
- Ding Y., Raterink R., Marín Juez R., Veneman W.J., Egbers K., Eeden S. van den, Haks M.C., Joosten S.A., Ottenhoff T.H.M., Harms A.C., Alia A., Hankemeier T. & Spaink H.P. (2020), y Tuberculosis causes highly conserved metabolic changes in human patients, mycobacteria-infected mice and zebrafish larvae, Scientific Reports 10(1): 11635.
- Wijk R.C. van, Sar A.M. van der, Krekels E.H.J., Verboom T., Spaink H.P., Simonsson U.S.H. & Graaf P.H. van der (2020), Quantification of natural growth of two strains of Mycobacterium marinum for translational anti‐tuberculosis drug development, Clinical and Translational Science 13(6): 1060-1064.
- Brinkmann B.W., Koch B.E.V., Spaink H.P., Peijnenburg W.J.G.M. & Vijver M.G. (2020), Colonizing microbiota protect zebrafish larvae against silver nanoparticle toxicity, Nanotoxicology 14(6): 725-739.
- Ding Y. Raterink R. Marín‑Juez R. Veneman W.J. Egbers K. Eeden S. van den Haks M.C. Joosten S.A. Ottenhof T.H.M. Harms A.C. Alia A. Hankemeier T. Spaink H.P. (2020), Tuberculosis causes highly conserved metabolic changes in human patients, mycobacteria‑infected mice and zebrafish larvae, Scientific Reports 10: 11635.
- Wijk R.C. van, Hu W.B., Dijkema S.M., Berg D. van den, Liu J., Bahi R., Verbeek F.J., Simonsson U.S.H., Spaink H.P., Graaf P.H. van der & Krekels E.H.J. (2020), Anti-tuberculosis effect of isoniazid scales accurately from zebrafish to humans, British Journal of Pharmacology 177(24): 5518-5533.
- Moreira J.D., Koch B.E.V., Veen S. van, Walburg K.V., Vrieling F., Pinto Dabés Guimarães T.M., Meijer A.H., Spaink H.P., Ottenhoff T.H.M., Haks M.C. & Heemskerk M.T. (2020), Functional inhibition of host histone deacetylases (HDACs) enhances in vitro and in vivo anti-mycobacterial activity in human macrophages and in zebrafish , Frontiers in Immunology 11: 36.
- Wijk R.C. van, Krekels E.H.J., Kantae V., Harms A.C., Hankemeier T., Graaf P.H. van der & Spaink H.P. (2019), Impact of post-hatching maturation on the pharmacokinetics of paracetamol in zebrafish larvae, Scientific Reports 9: 2149.
- Wijk R.C. van, Krekels E.H.J., Kantae V., Ordas A., Kreling T., Harms A.C., Hankemeier T., Spaink H.P. & Graaf P.H. van der (2019), Mechanistic and quantitative understanding of pharmacokinetics in zebrafish larvae through nanoscale blood sampling and metabolite modelling of paracetamol, Journal of Pharmacology and Experimental Therapeutics 371(1): 15-24.
- Steijn L. van, Verbeek F.J., Spaink H.P. & Merks R.M.H. (2019), Predicting Metabolism from Gene Expression in an Improved Whole-Genome Metabolic Network Model of Danio rerio, Zebrafish 16(4): 348-362.
- Kuo C.L., Kallemeijn W.W., Lelieveld L.T., Mirzaian M., Zoutendijk I., Vardi A., Futerman A.H., Meijer A.H., Spaink H.P., Overkleeft H.S., Aerts J.M.F.G. & Artola Perez de Azanza M.E. (2019), In vivo inactivation of glycosidases by conduritol B epoxide and cyclophellitol as revealed by activity‐based protein profiling, FEBS Journal 286(3): 584-600.
- Khalil Ramzi, Lalai Reshma A., Wiweger Malgorzata I., Avramut Cristina M., Koster Abraham J., Spaink Herman P., Bruijn Jan A., Hogendoorn Pancras C. W. & Baelde Hans J. (2019), Glomerular permeability is not affected by heparan sulfate glycosaminoglycan deficiency in zebrafish embryos, American Journal of Physiology 317(5): F1211-F1216.
- Dickmeis T., Feng Y., Mione M.C., Ninov N., Santoro M., Spaink H.P. & Gut P. (2019), Nano-sampling and reporter tools to study metabolic regulation in zebrafish, Frontiers in Cell and Developmental Biology 7: 15.
- Valassakis C., Dervisi I., Agalou A., Papandreou N., Kapetsis G., Podia V., Haralampidis K., Iconomidou V.A., Spaink H.P. & Roussis A. (2019), Novel interactions of Selenium Binding Protein family with the PICOT containing proteins AtGRXS14 and AtGRXS16 in Arabidopsis thaliana, Plant Science 281: 102-112.
- Rougeot J.J.Y., Torraca V., Zakrewska A., Kanwal Z., Jansen H.J., Sommer F., Spaink H.P. & Meijer A.H. (2019), RNAseq profiling of leukocyte populations in zebrafish larvae reveals a cxcl11 chemokine gene as a marker of macrophage polarization during mycobacterial infection, Frontiers in Immunology 10: 832.
- Hu W., Yang S., Shimada Y., Münch M., Marín-Juez R., Meijer A.H. & Spaink H.P. (2019), Infection and RNA-seq analysis of a zebrafish tlr2 mutant shows a broad function of this toll-like receptor in transcriptional and metabolic control and defense to Mycobacterium marinum infection, BMC Genomics 20: 878.
- Henderson F., Johnston H., Badrock A., Jones E., Forster D., Nagaraju R., Evangelou C., Kamarashev J., Green M., Fairclough M., Barinaga-Rementeria Ramirez I., He S., Snaar-Jagalska B.E., Hollywood K., Dunn W., Spaink H.P., Smith M., Lorigan P., Claude E., Williams K., McMahon A. & Hurlstone A. (2019), Enhanced fatty acid scavenging and glycerophospholipid metabolism accompany melanocyte neoplasia progression in zebrafish, Cancer Research 79(9): 2136-2151.
- Gennaro A. di, Damiano V., Brisotto G., Armellin M., Perin T., Zucchetto A., Guardascione M., Spaink H.P., Doglioni C., Snaar-Jagalska B.E., Santarosa M. & Maestro R. (2019), Correction to: A p53/miR-30a/ZEB2 axis controls triple negative breast cancer aggressiveness, Cell Death & Differentiation 26: 2493.
- Khalil R., Koop K., Kreutz R., Spaink H.P., Hogendoorn P.C.W., Bruijn J.A. & Baelde H.J. (2019), Increased dynamin expression precedes proteinuria in glomerular disease, Journal of Pathology 247(2): 177-185.
- Cordero-Maldonado M.L., Perathoner S., Kolk K.J. van der, Boland R., Heins-Marroquin U., Spaink H.P., Meijer A.H., Crawford A.D. & Sonneville J. de (2019), Deep learning image recognition enables efficient genome editing in zebrafish by automated injections, 14(1): e0202377.
- Kuo C.L., Kallemeijn W.W., Lelieveld L.T., Mirzaian M., Zoutendijk I., Vardi A., Futerman A.H., Meijer A.H., Spaink H.P., Overkleeft H.S., Aerts J.M.F.G. & Artola M. (2019), In vivo inactivation of glycosidases by conduritol B epoxide and cyclophellitol as revealed by activity-based protein profiling, FEBS Journal 286(3): 584-600.
- Koch B.E.V., Yang S., Lamers G.E.M., Stougaard J. & Spaink H.P. (2019), Author Correction: Intestinal microbiome adjusts the innate immune setpoint during colonization through negative regulation of MyD88, Nature Communications 10(1): 526.
- Zhang X., Boer L. de, Stockhammer O.W., Grijpma D.W., Spaink H.P. & Zaat S.A.J. (2019), A Zebrafish Embryo Model for In Vivo Visualization and Intravital Analysis of Biomaterial-associated Staphylococcus aureus Infection, Journal of visualized experiments (143): e58523.
- Jansen H., Dirks R.P., Liem M., Henkel C.V., Heusden G.P.H van, Lemmers R.J.L.F., Omer T., Shai S., Punt P.J. & Spaink H.P. (2018), De novo whole-genome assembly of a wild type yeast isolate using nanopore sequencing, F1000Research 6: 618.
- Brun N.R., Koch B.E.V., Varela M., Peijnenburg W.J.G.M., Spaink H.P. & Vijver M.G. (2018), Nanoparticles induce dermal and intestinal innate immune system responses in zebrafish embryos, Environmental Science: Nano 5(4): 904-916.
- Schulthess P., Wijk R.C. van, Krekels E.H.J., Yates J.W.T., Spaink H.P. & Graaf P.H. van der (2018), Outside-in systems pharmacology combines innovative computational methods with high-throughput whole vertebrate studies, CPT: Pharmacometrics and Systems Pharmacology 7(5): 285-287.
- Travin D., Popov I., Guler A.T., Medvedev D., Plas-Duivesteijn S. van der, Varela Alvarez M., Kolder I.C.R.M., Meijer A.H., Spaink H.P. & Palmblad M. (2018), COMICS: Cartoon Visualization of Omics Data in Spatial Context Using Anatomical Ontologies, Journal of Proteome Research 17(1): 739-744.
- Tudorache C., Slabbekoorn H.W., Robbers Y., Hin E., Meijer A.H., Spaink H.P. & Schaaf M.J.M. (2018), Biological clock function is linked to proactive and reactive personality types, BMC Biology 16: 148.
- Jarque S., Fetter E., Veneman W.J., Spaink H.P., Peravali R., Straehle U. & Scholz S. (2018), An automated screening method for detecting compounds with goitrogenic activity using transgenic zebrafish embryos, PLoS ONE 13(8): e0203087.
- Gennaro A. di, Damiano V., Brisotto G., Armellin M., Perin T., Zucchetto A., Guardascione M., Spaink H.P., Doglioni C., Snaar-Jagalska B.E., Santarosa M. & Maestro R. (2018), A p53/miR-30a/ZEB2 axis controls triple negative breast cancer aggressiveness, Cell Death & Differentiation 25(12): 2165-2180.
- Locati M.D., Pagano J.F.B., Abdullah F., Ensink W.A., Olst M. van, Leeuwen S. van, Nehrdich U., Spaink H.P., Rauwerda H., Jonker M.J., Dekker R.J. & Breit T.M. (2018), Identifying small RNAs derived from maternal- and somatic-type rRNAs in zebrafish development, Genome 61(5): 371-378.
- Koch B.E.V., Yang S., Lamers G.E.M., Stougaard J. & Spaink H.P. (2018), Intestinal microbiome adjusts the innate immune setpoint during colonization through negative regulation of MyD88, Nature Communications 9: 4099.
- Yang J., Meng Z., Liu Q., Shimada Y., Olsthoorn R.R.C.L., Spaink H.P., Herrmann A. & Kros A. (2018), Performing DNA nanotechnology operations on a zebrafish, Chemical Science 9(36): 7271-7276.
- Castillo-Robles J., Ramirez L., Spaink H.P. & Lomeli H. (2018), smarce1 mutants have a defective endocardium and an increased expression of cardiac transcription factors in zebrafish, Scientific Reports 8: 15369.
- Rooseboom M., Wildwater M., Currie R., Dirks R.P., Kerkhof E., Louter-van de Haar J., Maxwell S., Pears C., Pijnenburg D., Racz P., Ruijtenbeek R., Smulders C., Spaink H.P., Warren E., Whale G., Woollard A., Yebra-Pimentel E. & Pieters R. (2017), Combinatorial model organism strategy to predict developmental and reproductive toxicology (DART), Toxicology Letters 280(Supplement 1): S94-S94.
- Wijk R.C. van, Krekels E.H.J., Hankemeier T., Spaink H.P. & Graaf P.H. van der (2017), Systems pharmacology of hepatic metabolism in zebrafish larvae, Drug Discovery Today: Disease Models 22: 27-34.
- Veneman W.J., Spaink H.P., Brun N.R., Bosker T. & Vijver M.G. (2017), Pathway analysis of systemic transcriptome responses to injected polystyrene particles in zebrafish larvae, Aquatic Toxicology 190: 112-120.
- Locati M.D., Pagano J.F., Ensink W.A., Olst M. van, Leeuwen S. van, Nehrdich U., Zhu K., Spaink H.P., Girard G., Rauwerda H., Jonker M.J., Dekker R.J. & Breit T.M. (2017), Linking maternal and somatic 5S rRNA types with different sequence-specific Non-LTR retrotransposons, RNA 23: 446-456.
- Jansen H.J., Liem M., Jong-Raadsen S.A., Dufour S., Weltzien F.A., Swinkels W., Koelewijn A., Palstra A.P., Pelster B., Spaink H.P., Thillart G.E.V.D., Driks R.P. & Henkel C.V. (2017), Rapid de novo assembly of the European eel genome from nanopore sequencing reads, Scientific Reports 7(1): 7213 .
- Guo Y., Veneman W.J., Spaink H.P. & Verbeek F.J. (2017), Three-dimensional reconstruction and measurements of zebrafish larvae from high-throughput axial-view in vivo imaging, Biomedical Optics Express 8(5): 2611-2634.
- Zhang X., Stockhammer O.W., Boer L. de, Vischer N.O.E., Spaink H.P., Grijpma D.W. & Zaat S.A.J. (2017), The zebrafish embryo as a model to quantify early inflammatory cell responses to biomaterials, Journal of Biomedical Materials Research 105(9): 2522-2532.
- Zhu K., Spaink H.P. & Durston A.J. (2017), Collinear Hox-Hox interactions are involved in patterning the vertebrate anteposterior (A-P) axis, PLoS ONE 12(4): e0175287.
- Zhu K., Spaink H.P. & Durston A.J. (2017), Hoxc6 loss of function truncates the main body axis in Xenopus, Cell Cycle 16(11): 1136-1138.
- Locati M.D., Pagano J.F.B., Girard G., Ensink W.A., Olst M. van, Leeuwen S. van, Nehrdich U., Spaink H.P., Rauwerda H., Jonker M.J., Dekker R.J. & Breit T.M. (2017), Expression of distinct maternal and somatic 5.8S, 18S, and 28S rRNA types during zebrafish development, RNA 23(8): 1188-1199.
- Rauwerda H., Pagano J.F., Leeuw W.C. de, Ensink W., Nehrdich U., Jong M. de, Jonker M., Spaink H.P. & Breit T.M. (2017), Transcriptome dynamics in early zebrafish embryogenesis determined by high-resolution time course analysis of 180 successive, individual zebrafish embryos, BMC Genomics 18: 287.
- Racz P.I., Wildwater M., Rooseboom M., Kerkhof E., Pieters R., Yebra-Pimentel E.S., Dirks R.P., Spaink H.P., Smulders C. & Whale G.F. (2017), Application of Caenorhabditis elegans (nematode) and Danio rerio embryo (zebrafish) as model systems to screen for developmental and reproductive toxicity of piperazine compounds, Toxicology In Vitro 44: 11-16.
- Chatzopoulou A., Schoonheim P.J., Torraca V., Meijer A.H., Spaink H.P. & Schaaf M.J.M. (2017), Functional analysis reveals no transcriptional role for glucocorticoid receptor beta-isoform in zebrafish, Molecular and Cellular Endocrinology 447: 61-70.
- Zhu K., Spaink H.P. & Durston A.J. (2017), Regulation of Hox gene expression during anteroposterior patterning involves collinear Hox-Hox interactions, Mechanisms of Development 145: S83-S83.
- Guo Y., Wijk R.C. van, Krekels E.H.J., Spaink H.P., Graaf P.H. van der & Verbeek F.J. (2017), Multi-modal 3D reconstruction and measurements of zebrafish larvae and its organs using axial-view microscopy, 2017 IEEE International conference on image processing (ICIP). IEEE International Conference on Image Processing 2017 17 september 2017 - 20 september 2017: IEEE Xplore. 2194-2198.
- Guo Y., Veneman W., Spaink H.P. & Verbeek F.J. (2017), 3D reconstruction and measurements of zebrafish larvae from High-throughput axial-view in vivo imaging, Biomedical Optics Express 8(5): 2611-2634.
- Kantae V., Krekels E.H.J., Ordas A.K., Gonzalez O., Wijk R.C. van, Harms A.C., Racz P.I., Graaf P.H. van der, Spaink H.P. & Hankemeier T. (2016), Pharmacokinetic modeling of paracetamol uptake and clearance in zebrafish larvae: expanding the allometric scale in vertebrates with five orders of magnitude, Zebrafish 13(6): 504-510.
- Tulotta C., He S., Chen L., Groenewoud A., Ent W. van der, Meijer A.H., Spaink H.P. & Snaar-Jagalska B.E. (2016), Imaging of human cancer cell proliferation, invasion, and micrometastasis in a zebrafish xenogeneic engraftment model. In: Kawakami K., Patton E.E. & Orger M. (red.), Zebrafish. Methods in Molecular Biology nr. 1451. New York: Springer. 155-169.
- Yang J., Shimada Y., Olsthoorn R.R.C.L., Snaar-Jagalska B.E., Spaink H.P. & Kros A. (2016), Application of Coiled Coil Peptides in Liposomal Anti-Cancer Drug Delivery Using a Zebrafish Xenograft Model, ACS Nano 10(8): 7428-7435.
- Wiegertjes G.F., Wentzel A.S., Spaink H.P., Elks P.M. & Fink I.R. (2016), Polarization of immune responses in fish: the 'macrophages first' point of view, Molecular Immunology 69: 146-156.
- Ent W. van der, Veneman W.J., Groenewoud A., Chen L., Tulotta C., Hogendoorn P.C., Spaink H.P. & Snaar-Jagalska B.E. (2016), Automation of Technology for Cancer Research. In: Langenau D. (red.), Cancer and Zebrafish. Advances in Experimental Medicine and Biology nr. 916. Cham: Springer. 315-332.
- Tulotta C., He S., Ent W. van der, Chen L., Groenewoud A., Spaink H.P. & Snaar-Jalaska B.E. (2016), Imaging Cancer Angiogenesis and Metastasis in a Zebrafish Embryo Model. In: Langenau D. (red.), Cancer and Zebrafish. Advances in Experimental Medicine and Biology nr. 916. Cham: Springer. 239-263.
- Burgerhout E., Minegishi Y., Brittijn S.A., Wijze D.L. de, Henkel C.V., Jansen H.J., Spaink H.P., Dirks R.P. & Thillart G.E. van den (2016), Changes in ovarian gene expression profiles and plasma hormone levels in maturing European eel (Anguilla anguilla): biomarkers for broodstock selection, General and Comparative Endocrinology 225: 185-196.
- Kolder I.C.R.M., Plas S.J. van der, Tan G., Wiegertjes G.F., Forlenza M., Guler A.T., Travin D.Y., Nakao M., Moritomo T., Irnazarow I., Dunnen J.T. den, Anvar S.Y., Jansen H.J., Dirks R.P.H., Palmblad M., Lenhard B., Henkel C.V. & Spaink H.P. (2016), A full-body transcriptome and proteome resource for the European common carp, BMC Genomics 17: 701.
- Chatzopoulou Chatzi A., Heijmans J.P., Burgerhout E., Oskam N., Spaink H.P., Meijer A.H. & Schaaf M.J.M. (2016), Glucocorticoid-Induced Attenuation of the Inflammatory Response in Zebrafish, Endocrinology 157(7): 2772-2784.
- Staal F.J., Spaink H.P. & Fibbe W.E. (2016), Visualizing human hematopoietic stem cell trafficking in vivo using a zebrafish xenograft model, Stem Cells and Development 25(4): 360-365.
- Benard E.L., Rougeot J.J.Y., Racz P.I., Spaink H.P. & Meijer A.H. (2016), Transcriptomic approaches in the zebrafish model for tuberculosis-insights into host- and pathogen-specific determinants of the innate immune response, Advances in Genetics 95: 217-251.
- Hosseini R., Lamers G.E.M., Soltani H.M., Meijer A.H., Spaink H.P. & Schaaf M.J.M. (2016), Efferocytosis and extrusion of leukocytes determine the progression of early mycobacterial pathogenesis, Journal of Cell Science 129(18): 3385-3395.
- Rauwerda H., Wackers P., Pagano J.F.B., Jong M. de, Ensink W., Dekker R., Nehrdich U., Spaink H.P., Jonker M. & Breit T.M. (2016), Mother-Specific Signature in the Maternal Transcriptome Composition of Mature, Unfertilized Zebrafish Eggs, PLoS ONE 11(1): e0147151.
- Pagano J.F., Rauwerda H., Leeuw W.C. de, Wackers P., Jong M. de, Ensink W., Dekker R., Nehrdich U., Spaink H.P., Jonker M. & Breit T.M. (2016), Transcriptome data on maternal RNA of 24 individual zebrafish eggs from five sibling mothers, Data in Brief 8: 69-72.
- Spaink H.P. & et al. (2016), Guidelines for the use and interpretation of assays for monitoring autophagy, Autophagy 12(1): 1-222.
- Yang S., Marin Juez R., Meijer A.H. & Spaink H.P. (2015), Common and specific downstream signaling targets controlled by Tlr2 and Tlr5 innate immune signaling in zebrafish, BMC Genomics 16(1): 547.
- Torraca V., Cui C., Boland R., Bebelman J.P., Sar A.M. van der, Smit M.J., Siderius M., Spaink H.P. & Meijer A.H. (2015), The CXCR3-CXCL11 signaling axis mediates macrophage recruitment and dissemination of mycobacterial infection, Disease Models & Mechanisms 8(3): 253-269.
- Marin Juez R., Rovira M., Crespo D., Vaart M. van der, Spaink H.P. & Planas J.V. (2015), GLUT2-mediated glucose uptake and availability are required for embryonic brain development in zebrafish, Journal of Cerebral Blood Flow and Metabolism 35(1): 74-85.
- Jimenez-Amilburu V., Raadsen S.A., Bakkers J., Spaink H.P. & Marin-Juez R. (2015), GLUT12 deficiency during early development results in heart failure and a diabetic phenotype in zebrafish, Journal of Endocrinology 224(1): 1-15.
- Veneman W.J., Sonneville J. de, Kolk K.J. van der, Ordas A., Al-Ars Z., Meijer A.H. & Spaink H.P. (2015), Analysis of RNAseq datasets from a comparative infectious disease zebrafish model using GeneTiles bioinformatics, Immunogenetics 67(3): 135-147.
- Ordas A.K., Raterink R., Cunningham F., Jansen H.J., Wiweger M.I., Raadsen S.A., Bos S., Bates R.H., Barros D., Meijer A.H., Vreeken R.J., Ballell-Pages L., Dirks R.P.H., Hankemeier T. & Spaink H.P. (2015), Testing tuberculosis drug efficacy in a zebrafish high-throughput translational medicine screen, Antimicrobial Agents and Chemotherapy 59(2): 753-762.
- Spaink H., Racz P., Ordas A., Veneman W., Vijver M., Wildwater M., Pieters R., Zope H.R., Kros A., Kantae V., Krekels E., Graaf P.H. van der & Hankemeier T. (2015), Automated zebrafish toxicology screening: effect assessment and uptake studies, Toxicology Letters 238(2): S54-S54.
- Guo Y., Veneman W.J., Spaink H.P. & Verbeek F.J. (2015), Silhouette-based 3D model for zebrafish high-throughput imaging. Jennane R. (red.), 2015 International conference on image processing theory, tools and applications (IPTA). International Conference on Image Processing Theory, Tools and Applications (IPTA 2015) 10 november 2015 - 13 november 2015: IEEE. 403-408.
- Locati M.D., Terpstra I., Leeuw W.C. de, Kuzak M., Rauwerda H., Ensink W.A., Leeuwen S. van, Nehrdich U., Spaink H.P., Jonker M.J., Breit T.M. & Dekker R.J. (2015), Improving small RNA-seq by using a synthetic spike-in set for size-range quality control together with a set for data normalization, Nucleic Acids Research 43(14): e89.
- Chatzopoulou Chatzi A., Upasana R., Meijer A.H., Alia A., Spaink H.P. & Schaaf M.J.M. (2015), Transcriptional and metabolic effects of glucocorticoid receptor alpha and beta signaling in zebrafish, Endocrinology 156(5): 1757-1769.
- Benard E.L., Racz P.I., Rougeot J.Y.Y., Nezhinsky A.E., Verbeek F.J., Spaink H.P. & Meijer A.H. (2015), Macrophage-expressed perforins Mpeg1 and Mpeg1.2 have an anti-bacterial function in zebrafish, Journal of Innate Immunity 7(2): 136-152.
- Koch B.E., Stougaard J. & Spaink H.P. (2015), Keeping track of the growing number of biological functions of chitin and its interaction partners in biomedical research, Glycobiology 25(5): 469–482.
- Meijer A.H., Vaart M. van der & Spaink H.P. (2014), Real-time imaging and genetic dissection of host-microbe interactions in zebrafish, Cellular Microbiology 16(1): 39-49.
- Benard E.L., Roobol S.J., Spaink H.P. & Meijer A.H. (2014), Phagocytosis of mycobacteria by zebrafish macrophages is dependent on the scavenger receptor Marco, a key control factor of pro-inflammatory signalling, Developmental and Comparative Immunology 47(2): 223-233.
- Elks P.M., Vaart M. van der, Hensbergen V. van, Schutz E., Redd M.J., Murayama E., Spaink H.P. & Meijer A.H. (2014), Mycobacteria Counteract a TLR-Mediated Nitrosative Defense Mechanism in a Zebrafish Infection Model, PLoS ONE 9(6): e100928.
- Jacobs C.G.C., Spaink H.P. & Zee M. van der (2014), The extraembryonic serosa is a frontier epithelium providing the insect egg with a full-range innate immune response, eLife 3: 04111.
- Kanwal Z., Wiegertjes G.F., Veneman W.J., Meijer A.H. & Spaink H.P. (2014), Comparative studies of Toll-like receptor signalling using zebrafish, Developmental and Comparative Immunology 46(1): 35-52.
- Veneman W.J., Marín-Juez R., De Sonneville J., Ordas A., Jong-Raadsen S., Meijer A.H. & Spaink H.P. (2014), Establishment and optimization of a high throughput setup to study Staphylococcus epidermis and Mycobacterium marinum infection as a model for drug discovery, Journal of visualized experiments 88: e51649.
- Rougeot J.J.Y., Zakrzewska A., Kanwal Z., Jansen H.J., Spaink H.P. & Meijer A.H. (2014), RNA sequencing of FACS-sorted immune cell populations from zebrafish infection models to identify cell specific responses to intracellular pathogens, Methods in Molecular Biology 1197: 261-274.
- Palstra A.P., Rovira M., Rizo-Roca D., Torrella J.R., Spaink H.P. & Planas J.V. (2014), Swimming-induced exercise promotes hypertrophy and vascularization of fast skeletal muscle fibres and activation of myogenic and angiogenic transcriptional programs in adult zebrafish, BMC Genomics 15: 1136.
- Dirks R.P., Burgerhout E., Brittijn S.A., De Wijze D.L., Ozupek H., Tuinhof-Koelma N., Minegishi Y., Jong-Raadsen S.A., Spaink H.P. & Van den Thillart G.E. (2014), Identification of molecular markers in pectoral fin to predict artificial maturation of female European eels (Anguilla anguilla), General and Comparative Endocrinology 204: 267-276.
- Plas-Duivestein S.J. van der, Mohammed Y.T., Dalebout H., Meijer A.H., Botermans A., Hoogendijk J.L., Henneman A.A., Deelder A.M., Spaink H.P. & Palmblad M. (2014), Identifying proteins in zebrafish embryos using spectral libraries generated from dissected adult organs and tissues, Journal of Proteome Research 13(3): 1537-1544.
- Torraca V., Masud S., Spaink H.P. & Meijer A.H. (2014), Macrophage-pathogen interactions in infectious diseases: new therapeutic insights from the zebrafish host model, Disease Models & Mechanisms 7(7): 785-797.
- Ummels R., Abdallah A.M., Kuiper V., Aajoud A., Sparrius M., Naeem R., Spaink H.P., Van S.D., Pain A. & Bitter W. (2014), Identification of a novel conjugative plasmid in mycobacteria that requires both type IV and type VII secretion, mBio 5(5): e01744.
- Amerongen Y.F van, Roy U., Spaink H.P., Groot H.J.M. de, Huster D., Schiller J. & Alia A. (2014), Zebrafish brain lipid characterization and quantification by 1H nuclear magnetic resonance spectroscopy and MALDI-TOF mass spectrometry, Zebrafish 11(3): 240-247.
- Spaink H.P., Jansen H.J. & Dirks R.P.H. (2014), Advances in genomics of bony fish, Briefings in Functional Genomics 13(2): 144-156.
- Hosseini R., Lamers G.E.M., Hodzic Z., Meijer A.H., Schaaf M.J.M. & Spaink H.P. (2014), Correlative light and electron microscopy imaging of autophagy in a zebrafish infection model, Autophagy 10(10): 1844-1857.
- Vaart M. van der, Korbee C.J., Lamers G.E.M., Tengeler A.C., Hosseini R., Haks M.C., Ottenhoff T.H.M., Spaink H.P. & Meijer A.H. (2014), The DNA Damage-Regulated Autophagy Modulator DRAM1 Links Mycobacterial Recognition via TLR-MYD88 to Autophagic Defense, Cell Host and Microbe 15(6): 753-767.
- Briolat V., Jouneau L., Carvalho R., Palha N., Langevin C., Herbomel P., Schwartz O., Spaink H.P., Levraud J.P. & Boudinot P. (2014), Contrasted innate responses to two viruses in zebrafish: insights into the ancestral repertoire of vertebrate IFN-stimulated genes, Journal of Immunology 192(9): 4328-4341.
- Spaink H.P., Ottenhoff T.H.M., Dirks R.P. & Meijer A.H. (2014), New high-throughput technologies for drug screening in animal models of TB. In: Spaink H.P., Ottenhoff T.H.M., Dirks R.P. & Meijer A.H. (red.), The art & science of tuberculosis vaccine development. Selangor Darul Ehsan, Malaysia: Oxford University Press. 545-557.
- Koch B.E.V., Stougaard J. & Spaink H.P. (2014), Spatial and temporal expression patterns of chitinase genes in developing zebrafish embryos, Gene Expression Patterns 14(2): 69-77.
- Pietretti D., Scheer M., Fink I.R., Taverne N., Savelkoul H.F.J., Spaink H.P., Forlenza M. & Wiegertjes G.F. (2014), Identification and functional characterization of nonmammalian Toll-like receptor 20, Immunogenetics 66(2): 123-141.
- Vaart M. van der, Korbee C.J., Lamers G.E.M., Tengeler A.C., Hosseini R., Haks M.C., Ottenhoff T.H.M., Spaink H.P. & Meijer A.H. (2014), Correction to: The DNA Damage-Regulated Autophagy Modulator DRAM1 Links Mycobacterial Recognition via TLR-MYD88 to Autophagic Defense, Cell Host and Microbe 16(1): 141-141.
- Ent W. van der, Jochemsen A.G., Teunisse A.F., Krens S.G., Szuhai K., Spaink H.P., Hogendoorn P.C. & Snaar-Jagalska B.E. (2014), Ewing sarcoma inhibition by disruption of EWSR1-FLI1 transcriptional activity and reactivation of p53, The journal of Pathology 223(4): 415-424.
- Marin-Juez R., Jong-Raadsen S., Yang S. & Spaink H.P. (2014), Hyperinsulinemia induces insulin resistance and immune suppression via Ptpn6/Shp1 in zebrafish, Journal of Endocrinology 222(2): 229-241.
- Zope H.R., Versluis F., Ordas A.K., Voskuhl J., Spaink H.P. & Kros A. (2013), In vitro and In vivo supramolecular biomembrane engineering using a lipidated coiled-coil motif, Angewandte Chemie (International Edition) 52(52): 14247-14251.
- Laroche F.J.F., Tulotta C., Lamers G.E.M., Stougaard J., Blaise M., Verbeek F.J., Yang P., Bustos M., Meijer A.H. & Spaink H.P. (2013), The embryonic expression patterns of zebrafish genes encoding LysM-domains, Gene Expression Patterns 13(7): 212-224.
- Palmblad M., Henkel C.V., Dirks R.P., Meijer A.H., Deelder A.M. & Spaink H.P. (2013), Parallel deep transcriptome and proteome analysis of zebrafish larvae, BMC Research Notes 6: 428.
- Kanwal Z., Zakrzewska A., Den Hertog J., Spaink H.P., Schaaf M.J. & Meijer A.H. (2013), Deficiency in hematopoietic phosphatase Ptpn6/Shp1 hyperactivates the innate immune system and impairs control of bacterial infections in zebrafish embryos, Journal of Immunology 190(4): 1631-1645.
- Ager-Wick E., Dirks R.P., Burgerhout E., Nourizadeh-Lillabadi R., Wijze D.L. de, Spaink H.P. & Thillart G.E. van den (2013), The pituitary gland of the European eel reveals massive expression of genes involved in the melanocortin system, PLoS ONE 8(10): e77396.
- Raterink R., Kloet F.M. van der, Li J., Wattel N.A., Schaaf M.J.M., Spaink H.P., Berger R., Vreeken R.J. & Hankemeier T. (2013), Rapid metabolic screening of early zebrafish embryogenesis based on direct infusion-nanoESI-FTMS, Metabolomics 9: 864–873.
- Ordas A.K., Kanwal Z., Lindenberg V., Rougeot J.J.Y., Mink M., Spaink H.P. & Meijer A.H. (2013), MicroRNA-146 function in the innate immune transcriptome response of zebrafish embryos to Salmonella typhimurium infection, BMC Genomics 14: 696.
- Spaink H.P., Cui C., Wiweger M.I., Jansen H.J., Veneman W.J., Marin-Juez R., Sonneville J. de, Ordas A.K., Torraca V., Ent W. van der, Leenders W.P., Meijer A.H., Snaar-Jagalska B.E. & Dirks R.P.H. (2013), Robotic injection of zebrafish embryos for high-throughput screening in disease models, Methods 62(3): 246-254.
- Veneman W.J., Stockhammer O.W., Boer L. de, Zaat S.A., Meijer A.H. & Spaink H.P. (2013), A zebrafish high throughput screening system used for Staphylococcus epidermidis infection marker discovery, BMC Genomics 14: 255.
- Driessen M., Kienhuis A.S., Pennings J.L., Pronk T.E., Brandhof E.J. van de, Roodbergen M., Spaink H.P., Water B. van de & Ven L.T. van der (2013), Exploring the zebrafish embryo as an alternative model for the evaluation of liver toxicity by histopathology and expression profiling. Arch.Toxicol. 87, no. 5:807-823, Archives of Toxicology 87: 807-823.
- Palstra A.R., Beltran S., Burgerhout E., Brittijn S.A., Magnoni L.J., Henkel C.V., Jansen H.J., Thillart G.E.E.J.M. van den, Spaink H.P. & Planas J.V. (2013), Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish, PLoS ONE 8(1): e53171.
- Pietretti D., Spaink H.P., Falco A., Forlenza M. & Wiegertjes G.F. (2013), Accessory molecules for Toll-like receptors in Teleost fish. Identification of TLR4 interactor with leucine-rich repeats (TRIL), Molecular Immunology 56(4): 745-756.
- Vaart M. van der, Soest J.J. van, Spaink H.P. & Meijer A.H. (2013), Functional analysis of a zebrafish myd88 mutant identifies key transcriptional components of the innate immune system, Disease Models & Mechanisms 6(3): 841-854.
- Rian H., Krens S.F.G., Spaink H.P. & Snaar-Jagalska B.E. (2013), Generation of Constitutive Active ERK Mutants as Tools for Cancer Research in Zebrafish, ISRN Cell Biology 2013: 867613.
- Benard E.L., Sar A.M. van der, Ellett F., Lieschke G.J., Spaink H.P. & Meijer A.H. (2012), Infection of zebrafish embryos with intracellular bacterial pathogens, Journal of visualized experiments 61: e3781.
- Minegishi Y., Dirks R.P., Wijze D.L. de, Brittijn S.A., Burgerhout E., Spaink H.P. & Thillart G.E.E.J.M. van den (2012), Quantitative bioassays for measuring biologically functional gonadotropins based on eel gonadotropic receptors, General and Comparative Endocrinology 178(1): 145-152.
- He S., Lamers G.E.M., Beenakker J.W.M., Cui C., Ghotra V.P., Danen E.H.J., Meijer A.H., Spaink H.P. & Snaar-Jagalska B.E. (2012), Neutrophil-mediated experimental metastasis is enhanced by VEGFR inhibition in a zebrafish xenograft model, The journal of Pathology 227(4): 431-452.
- Sanchez-Faddeev H., Emmerich Michael T.M., Verbeek F.J., Henry A.H., Grimshaw S., Spaink H.P., Vlijmen H.W.T. van & Bender A. (2012), Using multiobjective optimization and energy minimization to design an isoform-selective ligand of the 14-3-3 Protein. Margaria T. & Steffen B. (red.), Leveraging applications of formal methods, verification and validation. applications and case studies (ISoLA 2012). International Symposium On Leveraging Applications of Formal Methods, Verification and Validation ISoLA 2012 15 oktober 2012 - 18 oktober 2012. Lecture Notes in Computer Science nr. 7610. Berlin, Heidelberg: Springer. 12-24.
- Truong H.H., Sonneville J. de, Ghotra V.P., Xiong J., Price L., Hogendoorn P.C., Spaink H.P., Water B. van de & Danen E.H. (2012), Automated microinjection of cell-polymer suspensions in 3D ECM scaffolds for high-throughput quantitative cancer invasion screens, Biomaterials 33(1): 181-188.
- Ghotra V.P., He S., Bont H.J.G.M. de, Ent W. van der, Spaink H.P., Water B. van de, Snaar-Jagalska B.E. & Danen E.H.J. (2012), Automated whole animal bio-imaging assay for human cancer dissemination, 7(2): e31281.
- Schartl M., Kneitz S., Wilde B., Wagner T., Henkel C.V., Spaink H.P. & Meijerjohann S. (2012), Conserved expression signatures between medaka and human pigment cell tumors, PLoS ONE 7(5): e37880.
- Henkel C.V., Dirks R.P., Jansen H.J., Forlenza M., Wiegertjes G.F., Howe K., Thillart G.E.E.J.M. van den & Spaink H.P. (2012), Comparison of the exomes of common carp (Cyprinus carpio) and zebrafish (Danio rerio), Zebrafish 9(2): 59-67.
- Zhou X., Laroche F., Lamers G.E.M., Torraca V., Voskamp P., Lu T., Chu F., Spaink H.P., Abrahams J.P. & Liu Z.F. (2012), Ultra-small graphene oxide functionalized with polyethylenimine (PEI) for very efficient gene delivery in cell and zebrafish embryos, Nano Research 5(10): 703-709.
- Vaart M. van der, Spaink H.P. & Meijer A.H. (2012), Pathogen recognition and activation of the innate immune response in zebrafish, Advances in Hematology 2012: 159807.
- Mohseny A.B., Xiao W., Carvalho R., Spaink H.P., Hogendoorn P.C. & Cleton-Jansen A.M. (2012), An osteosarcoma zebrafish model implicates Mmp-19 and Ets-1 as well as reduced host immune response in angiogenesis and migration, The journal of Pathology 227(2): 245-253.
- Henkel C.V., Dirks R.P.H., Wijze D.L. de, Minegishi Y., Jansen H.J., Dufour S., Tsukamoto K., Spaink H.P. & Thillart G.E.E.J.M. van den (2012), First draft genome sequence of the Japanese eel, Anguilla japonica, Gene 511(2): 195-201.
- Henkel C.V., Burgerhout E., Wijze D.L. de, Dirks R.P.H., Minegishi Y., Jansen H.J., Spaink H.P. & Thillart G.E.E.J.M. van den (2012), Primitive duplicate hox clusters in the European eel's genome, PLoS ONE 7(2): 32231.
- Blaise M., Alsaraf J.E., Wong J.E., Midtgaard S.R., Laroche F., Spaink H.P., Stougaard J. & Thirup S. (2012), Crystal structure of the TLDc domain of oxidation resistance protein 2 from zebrafish, Proteins 80(11): 1694-1698.
- Alsarraf H.M.A.B., Laroche F., Spaink H.P., Thirup S. & Blaise M. (2011), Purification, crystallization and preliminary crystallographic studies of the TLDc domain of oxidation resistance protein 2 from zebrafish, Acta Crystallographica Section F 67: 1253-1256.
- Ordas A., Hegedus Z., Henkel C.V., Stockhammer O.W., Butler D., Jansen H.J., Racz P.I., Mink M., Spaink H.P. & Meijer A.H. (2011), Deep sequencing of the innate immune transcriptomic response of zebrafish embryos to Salmonella infection, Onbekend 31: 716-724.
- Harrison M.R.M., Georgiou A.S., Spaink H.P. & Cunliffe V.T. (2011), The epigenetic regulator Histone Deacetylase 1 promotes transcription of a core neurogenic programme in zebrafish embryos, BMC Genomics 12: 24.
- Cui C., Benard E.L., Kanwal Z., Stockhammer O.W., Vaart M. van der, Zakrzewska A., Spaink H.P. & Meijer A.H. (2011), Infectious disease modeling and innate immune function in zebrafish embryos, Methods in Cell Biology 105: 273-308.
- Rotman J., Gils W. van, Butler D., Spaink H.P. & Meijer A.H. (2011), Rapid screening of innate immune gene expression in zebrafish using reverse transcription - multiplex ligation-dependent probe amplification, BMC Research Notes 4: 196.
- Peng K., Tomatsu I., Broek B. van den, Cui C., Korobko A.V., Noort J. van, Meijer A.H., Spaink H.P. & Kros A. (2011), Dextran based photodegradable hydrogels formed via a Michael addition, Soft Matter 7: 4881-4887.
- Martens A.A., Besseling N.A.M., Rueb S., Sudholter E.J.R., Spaink H.P. & Smet L.C.P.M. de (2011), Random scission of polymers: numerical simulations, and experiments on hyaluronan hydrolosis, Macromolecules 44(8): 2559-2567.
- Serge A., Keijzer S. de, Hemert F. van, Hickman M., Hereld D., Spaink H.P., Schmidt T. & Snaar B.E. (2011), Quantification of GPCR internalization by single-molecule microscopy in living cells, Integrative Biology 3(6): 675-683.
- Zhang Y., Stupka E., Henkel C.V., Jansen H.J., Spaink H.P. & Verbeek F.J. (2011), Identification of common carp innate immune genes with whole-genome sequencing and RNA-seq data, Journal of Integrative BioInformatics 8(2): 169.
- Meijer A.H. & Spaink H.P. (2011), Host-pathogen interactions made transparent with the zebrafish model, Current Drug Targets 12(7): 1000-1017.
- He S., Krens S.F.G., Zhan H., Gong Z., Hogendoorn P.C.W., Spaink H.P. & Snaar-Jagalska B.E. (2011), A deltaRaf1-ER inducible oncogenic zebrafish liver cell model identifies hepatocellular carcinoma signatures, The journal of Pathology 225(1): 19-28.
- Soest J.J. van, Stockhammer O.W., Ordas A., Bloemberg G.V., Spaink H.P. & Meijer A.H. (2011), Comparison of static immersion and intravenous injection systems for exposure of zebrafish embryos to the natural pathogen Edwardsiella tarda, BMC Immunology 12: 58.
- Ali S., Champagne D.L., Spaink H.P. & Richardson M.K. (2011), Zebrafish embryos and larvae: a new generation of disease models and drug screens, Birth Defects Research 93(2): 115-133.
- Carvalho R., Sonneville J. de, Stockhammer O.W., Savage N.D.L., Veneman W.J., Ottenhoff T.H.M., Dirks R.P., Meijer A.H. & Spaink H.P. (2011), A High-Throughput Screen for Tuberculosis Progression, PLoS ONE 6(2): e16779.
- Burgerhout E., Brittijn S.A., Kurwie T., Decker P., Dirks R.P.H., Palstra A.P., Spaink H.P. & Thillart G.E.E.J.M. van den (2011), First artificial hybrid of the eel species Anguilla australis and Anguilla anguilla, BMC Developmental Biology 11: 16.
- Zakrzewska A., Cui C., Stockhammer O.W., Benard E.L., Spaink H.P. & Meijer A.H. (2010), Macrophage-specific gene functions in Spi1-directed innate immunity, Blood 116: e1-11.
- Palstra A.P., Schnabel D., Nieveen M.C., Spaink H.P. & Thillart G.E.E.J.M. van den (2010), Swimming suppresses hepatic vitellogenesis in European female silver eels as shown by expression of the estrogen receptor 1, vitellogenin1 and vitellogenin2 in the liver, Reproductive Biology and Endocrinology 8: 27.
- Akker W.M. van den, Durston A.J. & Spaink H.P. (2010), Identification of hoxb1b downstream genes: hoxb1b as a regulatory factor controlling transcriptional networks and cell movement during zebrafish gastrulation, The International Journal of Developmental Biology 54(1): 55-62.
- Stockhammer O.W., Rauwerda H., Wittink F.R., Breit T.M., Meijer A.H. & Spaink H.P. (2010), Transcriptome analysis of Traf6 function in the innate immune response of zebrafish embryos, Molecular Immunology 48(1-3): 179-190.
- Peng K., Cui C., Tomatsu I., Porta F., Meijer A.H., Spaink H.P. & Kros A. (2010), Cyclodextrin/dextran based drug carriers for a controlled release of hydrophobic drugs in zebrafish embryos, Soft Matter 6(16): 3778-3783.
- Rauwerda H., Jong M. de, Leeuw W.C. de, Spaink H.P. & Breit T.M. (2010), Integrating heterogeneous sequence information for transcriptome-wide microarray design; a Zebrafish example, BMC Research Notes 3: 192.
- Ordas A., Hegedus Z., Henkel C.V., Stockhammer O.W., Butler D., Jansen H.J., Racz P.I., Mink M., Spaink H.P. & Meijer A.H. (2010), Deep sequencing of the innate immune transcriptomic response of zebrafish embryos to Salmonella infection, Fish and Shellfish Immunology 31(5): 716-724.
- Palstra A.P., Tudorache C., Rovira M., Brittijn S.A., Burgerhout E., Thillart G.E.E.J.M. van den, Spaink H.P. & Planas J.V. (2010), Establishing Zebrafish as a Novel Exercise Model: Swimming Economy, Swimming-Enhanced Growth and Muscle Growth Marker Gene Expression, PLoS ONE 5(12): e14483.
- Palstra A.P., Schnabel D., Nieveen M.C., Spaink H.P. & Thillart G.E.E.J.M. van den (2010), Temporal expression of hepatic estrogen receptor 1, vitellogenin1 and vitellogenin2 in European silver eels, General and Comparative Endocrinology 166(1): 1-11.
- Kabli S., He S.N., Spaink H.P., Hurlstone A., Snaar-Jagalska B.E., Groot H.J.M. de & Alia A. (2010), In vivo magnetic resonance imaging to detect malignant melanoma in adult zebrafish, Zebrafish 7(2): 143-148.
- Jong M. de, Rauwerda H., Bruning O., Verkooijen J., Spaink H.P. & Breit T.M. (2010), RNA isolation method for single embryo transcriptome analysis in zebrafish, BMC Research Notes 3: 73.
- Hegedűs Z., Zakrzewska A., Agoston V.C., Ordas A., Rácz P., Mink M., Spaink H.P. & Meijer A.H. (2009), Deep sequencing of the zebrafish transcriptome response to mycobacterium infection, Molecular Immunology 46(15): 2918-2930.
- Sar A.M. van der, Spaink H.P., Zakrzewska A., Bitter W. & Meijer A.H. (2009), Specificity of the zebrafish host transcriptome response to acute and chronic mycobacterial infection and the role of innate and adaptive immune components, Molecular Immunology 46(11-12): 2317-2332.
- Schaaf M.J.M., Koopmans W., Meckel T.M., Noort S.J.T. van, Snaar B.E., Schmidt T. & Spaink H.P. (2009), Single-molecule microscopy reveals membrane microdomain organization of cells in a living vertebrate, Biophysical Journal 97(4): 1206-1214.
- Stockhammer O.W., Zakrzewska A., Hegedûs Z., Spaink H.P. & Meijer A.H. (2009), Transcriptome profiling and functional analyses of the zebrafish embryonic innate immune response to Salmonella infection, Journal of Immunology 182(9): 5641-5653.
- Paulo P.M.R., Gaiduk A., Kulzer F.M., Krens S.F.G., Spaink H.P., Schmidt T. & Orrit M.A.G.J. (2009), Photothermal correlation spectroscopy of gold nanoparticles in solution, The Journal of Physical Chemistry C 113(27): 11451-11457.
- Webb K.J., Norton W.H., Trümbach D., Meijer A.H., Ninkovic J., Topp S., Heck D., Marr C., Wurst W., Theis F.J., Spaink H.P. & Bally-Cuif L. (2009), Zebrafish reward mutants reveal novel transcripts mediating the behavioral effects of amphetamine, Genome Biology 10: R81.
- Schaaf M.J.M., Chatzopoulou Chatzi A. & Spaink H.P. (2009), The zebrafish as a model system for glucocorticoid receptor research, Comparative Biochemistry and Physiology. A. Molecular Integrative Physiology 153(1): 75-82.
- Kabli S., Spaink H.P., Groot H.J.M. de & Alia A. (2009), In Vivo metabolite profile of adult zebrafish brain obtained by high-resolution localized magnetic resonance spectroscopy, Journal of Magnetic Resonance Imaging 29(2): 275-281.
- Brittijn S.A., Duivesteijn S.J., Belmamoune M., Bertens L.M.F., Bitter W., Bruijn J.D. de, Champagne D.L., Cuppen E., Flik G., Broucke-Grauls C.M. van den, Janssen R., Jong I.E.M. de, Kloet E.R. de, Kros A., Meijer A., Metz J.R., Sar A.M. van der, Schaaf M.J., Schulte-Merker S., Spaink H.P., Tak P.P., Verbeek F.J., Vervoordeldonk M.J., Vonk F., Witte F., Yuan H. & Richardson M.K. (2009), Zebrafish development and regeneration: new tools for biomedical research, The International Journal of Developmental Biology 53(5-6): 835-850.
- Mione M., Meijer A.H., Snaar-Jagalska B.E., Spaink H.P. & Trede N.S. (2009), Disease modeling in zebrafish: cancer and immune responses. second international workshop on Zebrafish Models of Cancer and the Immune Response 20 juli 2009 - 22 juli 2009. Zebrafish 445-451.
- Meijer A.H., Sar A.M. van der, Cunha C., Lamers G.E.M., Laplante M.A., Kikuta H., Bitter W., Becker T.S. & Spaink H.P. (2008), Identification and real-time imaging of a myc-expressing neutrophil population during inflammation and mycobacterial granuloma formation in zebrafish, Developmental and Comparative Immunology 32(1): 36-49.
- Marques I.J., Leito J.T., Spaink H.P., Testerink J., Jaspers R.T., Witte F., Berg S. van den & Bagowski C.P. (2008), Transcriptome analysis of the response to chronic constant hypoxia in zebrafish hearts, Journal of Comparative Physiology B : Biochemical Systemic and Environmental Physiology 178: 77-92.
- Schaaf M.J.M., Champagne D., Laanen I.H. van, Wijk D.C. van, Meijer A.H., Meijer O.C., Spaink H.P. & Richardson M.K. (2008), Discovery of a functional glucocorticoid receptor {beta}-isoform in zebrafish, Endocrinology 149(4): 1591-1599.
- Palstra A.P., Schnabel D., Nieveen M.C., Spaink H.P. & Thillart G.E.E.J.M. van den (2008), Male silver eels mature by swimming, BMC Physiology 8: 14.
- Schlaman W.R.M., Schmidt K.A., Ottenhof D., Es M.H. van, Oosterkamp T.H. & Spaink H.P. (2008), Analysis of Interactions of Signaling Proteins with Phage-Displayed Ligands by Fluorescence Correlation Spectroscopy, Slas Discovery 13(8): 766-776.
- Zhu Y., Hanna R.N., Schaaf M.J.M., Spaink H.P. & Thomas P. (2008), Candidates for membrane progestin receptors: past approaches and future challenges, Comparative Biochemistry Physiology C Toxicology Pharmacology 148(4): 381-389.
- Keijzer S. de, Snaar-Jagalska B.E., Spaink H.P. & Schmidt T. (2008), Single molecule imaging of cellular signaling. In: Rigler R. & Vogel H. (red.), Single Molecules and Nanotechnology. Biophysics nr. 12. Berlin, Heidelberg: Springer-Verlag. 107-129.
- Kulzer F.M., Laurens N., Besser J.C., Schmidt T., Orrit M.A.G.J. & Spaink H.P. (2008), Photothermal detection of individual gold nanoparticles: perspectives for high-throughput screening, ChemPhysChem 9: 1761-1766.
- Krens S.F.G., Corredor-Adámez M., He S., Snaar-Jagalska B.E. & Spaink H.P. (2008), ERK1 and ERK2 MAPK are key regulators of distinct gene sets in zebrafish embryogenesis, BMC Genomics 9: 196.
- Keijzer S. de, Sergé A., Hemert F. van, Lommerse P., Lamers G.E.M., Spaink H.P., Schmidt T. & Snaar-Jagalska B.E. (2008), A spatially restricted increase in receptor mobility is involved in directional sensing during Dictyostelium discoideum chemotaxis, Journal of Cell Science 121(10): 1750-1757.
- Krens S.F.G., He S., Lamers G.E.M., Meijer A.H., Bakkers J., Schmidt T., Spaink H.P. & Snaar-Jagalska B.E. (2008), Distinct functions for ERK1 and ERK2 in cell migration processes during zebrafish gastrulation, Developmental Biology 319(2): 370-383.
- Trede N., Meijer A.H., Snaar-Jagalska B.E. & Spaink H.P. (2007), Model systems for infectious disease and cancer in zebrafish, EMBO workshop. EMBO Workshop 16 juli 2007 - 18 juli 2007. Zebrafish 287-292.
- Rubio M.C., Becana M., Sato S., James E.K., Tabatta S. & Spaink H.P. (2007), Characterization of genomic clones and expression analysis of the three types of superoxide dismutases during nodule development in Lotus japonicus, Molecular Plant-Microbe Interactions 20(3): 262-275.
- Henkel C.V., Bäck T.H.W., Kok J.N., Rozenberg G. & Spaink H.P. (2007), DNA computing of solutions to knapsack problems, Biosystems 88(1-2): 156-162.
- Schnabel D., Palstra A.P., Thillart G.E.E.J.M. van den & Spaink H.P. (2007), Induced sexual maturation in eel with embryonic zebrafish cell lines that constitutive produce LH and FSH, Developmental Biology 306(1): 384.
- Krens S.F.G., He S., Spaink H.P. & Snaar-Jagalska B.E. (2006), Characterization and expression patterns of the MAPK family in zebrafish, Gene Expression Patterns 6(8): 1019-1026.
- Welten M.C.M., Haan S.B. de, Boogert N. van den, Noordermeer J.N., Lamers G.E.M., Spaink H.P., Meijer A.H. & Verbeek F.J. (2006), ZebraFISH: fluorescent in situ hybridization protocol and three-dimensional imaging of gene expression patterns, Zebrafish 3(4): 465-474.
- Besser J.C., Bagowski C.P., Salas-Vidal E., Hemert M.J. van, Bussmann J. & Spaink H.P. (2006), Expression analysis of the family of 14-3-3 proteins in zebrafish development, Gene Expression Patterns 7(4): 511-520.
- Schlaman W.R.M., Olsthoorn M.M.A., Harteveld M., Dorner L., Djordjevic M.A., Thomas-Oates J.E. & Spaink H.P. (2006), The production of species-specific highly unsaturated fatty acyl-containing LCOs from Rhizobium leguminosarum bv. trifolii is stringently regulated by nodD and involves the nodRL genes, Molecular Plant-Microbe Interactions 19(3): 215-226.
- Agalou A., Spaink H.P. & Roussis A. (2006), Novel interaction of selenium-binding protein with glyceraldehyde-3-phosphate dehydrogenase and fructose-bisphosphate aldolase of Arabidopsis thaliana, Functional Plant Biology 33(9): 847-856.
- Spaink H.P., Snaar-Jagalska B.E. & Meijer A.H. (2006), The innate immune system of vertebrates: challenges for future research. In: Sanchez F., Quinto C., Lopez-Lara I.M. & Geiger O. (red.), Biology of Plant-Microbe Interactions. St.Paul: I.S. for Molecular Plant-Microbe Interactions. 674-680.
- Krens S.F.G., Spaink H.P. & Snaar-Jagalska B.E. (2006), Functions of the MAPK family in vertebrate development, FEBS Letters 580(21): 4984-4990.
- Henkel C.V., Rozenberg G. & Spaink H.P. (2006), Application of mismatch detection methods in DNA computing, Natural computing 5: 151-163.
- Kabli S., Alia A., Spaink H.P., Verbeek F.J. & Groot H.J.M. de (2006), Magnetic resonance microscopy of the adult zebrafish, Zebrafish 3(4): 431-439.
- Lommerse P., Vastenhoud K., Pirinen N.J., Magee A.I., Spaink H.P. & Schmidt T. (2006), Single-molecule diffusion reveals similar mobility for the Lck, H-ras, and K-ras membrane anchors, Biophysical Journal 91(3): 1090-1097.
- Maraschin S.de.F., Caspers M., Potokina E., Wulfert F., Corredor-Adámez M., Graner A., Spaink H.P. & Wang M. (2006), cDNA array analysis of stress-induced gene expression in barley androgenesis, Physiologia Plantarum 127(4): 525-550.
- Sar A.M. van der, Stockhammer O.W., Laan C. van der, Spaink H.P., Bitter W. & Meijer A.H. (2006), MyD88 innate immune function in a zebrafish embryo infection model, Infection and Immunity 74(4): 2436-2441.
- He S., Salas-Vidal E., Rueb S., Krens S.F.G., Meijer A.H., Snaar-Jagalska B.E. & Spaink H.P. (2006), Genetic and transcriptome characterization of model zebrafish cell lines, Zebrafish 3(4): 441-453.
- Rodrigues-Lima F., Dairou J., Diaz C., Rubio M.C., Sim E., Spaink H.P. & Dupret J.M. (2006), Cloning, functional expression and characterization of Mesorhizobium loti arylamine N-acetyltransferases: rhizobial symbiosis supplies leguminous plants with the xenobiotic N-acetylation pathway, Molecular Microbiology 60(2): 505-512.
- Gronlund M., Roussis A., Flemetakis E., Quaedvlieg N.E.M., Schlaman H.R.M., Umehara Y., Katinaks P., Stougaard J. & Spaink H.P. (2005), Analysis of promoter activity of the early nodulin Enod40 in Lotus japonicus, Molecular Plant-Microbe Interactions 18(5): 414-427.
- Maraschin S.F., Priester W. de, Spaink H.P. & Wang M. (2005), Androgenic switch: an example of plant embryogenesis from the male gametophyte perspective, Journal of Experimental Botany 56(417): 1711-1726.
- Agalou A., Roussis A. & Spaink H.P. (2005), The Arabidopsis selenium-binding protein confers tolerance to toxic levels of selenium, Functional Plant Biology 32(10): 881-890.
- Diáz C.L., Schlaman W.R.M. & Spaink H.P. (2005), Concurrent visualization of gusA and lacZ reporter gene expression. In: Marquez A.J. (red.), Lotus japonicus Handbook. Dordrecht: Springer. 99-109.
- Diáz C.L., Grønlund M., Schlaman W.R.M. & Spaink H.P. (2005), Induction of hairy roots for symbiotic gene expression studies. In: Marquez A.J. (red.), Lotus japonicus Handbook. Dordrecht: Springer. 261-277.
- Grønlund M., Agalou A., Rubio M.C., Lamers G.E.M., Roussis A. & Spaink H.P. (2005), Embedding root and nodule tissue in plastic (BMM). In: Marquez A.J. (red.), Lotus japonicus Handbook. Dordrecht: Springer. 111-122.
- Meer D.L. van der, Thillart G.E.E.J.M. van den, Witte F., Bakker M.A., Besser J., Richardson M.K., Spaink H.P., Leito J.T. & Bagowski C.P. (2005), Gene expression profiling of the long-term adaptive response to hypoxia in the gills of adult zebrafish, American Journal of Physiology - Regulatory, Integrative and Comparative Physiology 289(5): R1512-R1519.
- Henkel C.V., Rozenberg G. & Spaink H.P. (2005), Application of mismatch detection methods in DNA computing. Ferretti C., Mauri G. & Zandron C. (red.), DNA Computing. DNA 2004. International Conference on DNA Computing and Molecular Programming 7 juni 2004 - 10 juni 2004. Lecture Notes in Computer Science nr. 3384. Berlin, Heidelberg: Springer. 159-168.
- Meijer A.H., Verbeek F.J., Salas-Vidal E., Corredor-Adamez M., Bussman J., Sar A.M. van der, Otto G.W., Geisler R. & Spaink H.P. (2005), Transcriptome profiling of adult zebrafish at the late stage of chronic tuberculosis due to Mycobacterium marinum infection, Molecular Immunology 42(10): 1185-1203.
- Salas-Vidal E., Meijer A.H., Cheng X. & Spaink H.P. (2005), Genomic annotation and expression analysis of the zebrafish Rho small GTPase family during development and bacterial infection, Genomics 86(1): 25-37.
- Maraschin S. de F., Gaussand G.M.D.J., Pulido A., Olmedilla A., Lamers G.E., Korthout H.A., Spaink H.P. & Wang M. (2005), Programmed cell death during the transition from multicellular structures to globular embryos in barley androgenesis, Planta 221: 459-470.
- Corredor-Adamez M., Welten H.P., Spaink H.P., Jeffery J.E., Schoon R.T., Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J. & Richardson M.K. (2005), Genomic annotation and transcriptome analysis of the zebrafish (Danio rerio) hox complex with description of a novel member, Evolution and Development 7(5): 362-375.
- Lommerse P.H., Snaar-Jagalska B.E., Spaink H.P. & Schmidt T. (2005), Single-molecule diffusion measurements of H-Ras at the plasma membrane of live cells reveal microdomain localization upon activation, Journal of Cell Science 118(9): 1799-1809.
- Henkel C.V., Bladergroen R.S., Balog C.I.A., Deelder A.M., Head T., Rozenberg G. & Spaink H.P. (2005), Protein output for DNA computing, Natural computing 4: 1-10.
- Hemert M.J. van, Niemantsverdriet M., Schmidt T., Backendorf C.M.P. & Spaink H.P. (2004), Isoform-specific differences in rapid nucleocytoplasmic shuttling cause distinct subcellular distributions in 14-3-3-σ and 14-3-3-ζ, Journal of Cell Science 117(8): 1411-1420.
- Kuijt S.J.H., Lamer G.E.M., Rueb S., Scarpella E., Ouwerkerk P.B.F., Spaink H.P. & Meijer A.H. (2004), Different subcellular localization and trafficking properties of KNOX class 1 homeodomain proteins from rice, Plant Molecular Biology 55(6): 781-796.
- Holst P.P.G. van der, Grønlund M., Stougaard J. & Spaink H.P. (2004), Symbiosis and defence: two side of one coin. Tikhonovich I. & Lugtenberg E.J.J. (red.), Molecular Plant-Microbe Interactions. . Dordrecht: Kluwer Academic Publishers. 338-342.
- Maraschin S. de F., Vennik M., Lamers G.E.M., Spaink H.P. & Wang M. (2004), Time-lapse tracking of barley androgenesis reveals position-determined cell death within pro-embryos, Planta 220: 531-540.
- Lommerse P.H., Blab G.A., Cognet L., Harms G.S., Snaar B.E., Spaink H.P. & Schmidt T. (2004), Single-molecule imaging of the h-ras membrane-anchor reveals domains in the cytoplasmic leaflet of the cell membrane, Biophysical Journal 86(1): 609-616.
- Meijer A.H., Krens S.F.G., Medina Rodriguez I.A., He S., Bitter W., Snaar-Jagalska B.E. & Spaink H.P. (2004), Expression analysis of the Toll-like receptor and TIR domain adaptor families of zebrafish, Molecular Immunology 40(11): 773-783.
- Bakkers J., Kramer C., Pothof J., Quaedvlieg N.E.M., Spaink H.P. & Hammerschmidt M. (2004), Has2 is required upstream of Rac1 to govern dorsal migration of lateral cells during zebrafish gastrulation, Development 131(3): 525-537.
- Solheim B., Wiggen H., Røberg S. & Spaink H.P. (2004), Associations between arctic Cyanobacteria and mosses, Symbiosis 37: 169-187.
- Schmidt K.A., Henkel C.V., Rozenberg G. & Spaink H.P. (2004), DNA computing using single-molecule hydridization detection, Nucleic Acids Research 32(17): 4962-4968.
- Lommerse P., Spaink H.P. & Schmidt T. (2004), In vivo plasma membrane organization: results of biophysical approaches, Biochimica et Biophysica Acta 1664(2): 119-131.
- Spaink H.P. (2004), Specific recognition of bacteria by plant LysM domain receptor kinases, Trends in Microbiology 12(5): 201-204.
- Vinuesa P., Neumann-Silkow F., Pacios-Bras C., Spaink H.P., Martinez-Romero E. & Werner D. (2003), Genetic analysis of a pH-regulated operon from Rhizobium tropici CIAT899 involved in acid tolerance and nodulation competitiveness, Molecular Plant-Microbe Interactions 16(2): 159-168.
- Maraschin S.F., Lamers G.E.M., Pater B.S. de, Spaink H.P. & Wang M. (2003), 14-3-3 isoforms and pattern formation during barley microspore embryogenesis, Journal of Experimental Botany 54(384): 1033-1043.
- Rozenberg G. & Spaink H.P. (2003), DNA computing by blocking, Theoretical Computer Science 292(3): 653-665.
- Thomas-Oates J., Bereszczak J., Edwards E., Gill A., Noreen S., Zhou J.C., Chen M.Z., Miao L.H., Xie F.L., Yang J.K., Zhou Q., Yang S.S., Li X.H., Wang L., Spaink H.P., Schlaman W.R.M., Harteveld M., Diaz C.L., Brussel A.A.N. van, Camacho M., Rodriguez-Navarro D.N., Santamaria C., Temprano F., Acebes J.M., Bellogin R.A., Buendia-Claveria A.M., Cubo M.T., Espuny M.R., Gil A.M., Gutierrez R., Hidalgo A., Lopez-Baena F.J., Madinabeitia N., Medina C., Ollero F.J., Vinardell J.M. & Ruiz-Sainz J.E. (2003), A catalogue of molecular, physiological and symbiotic properties of soybean-nodulating rhizobial strains from different soybean cropping areas of China, Systematic and Applied Microbiology 26(3): 453-465.
- Pacios-Bras C., Schlaman W.R.M., Boot K., Admiraal P., Mateos Langerak J., Stougaard J. & Spaink H.P. (2003), Auxin distribution in Lotus japonicus during root nodule development, Plant Molecular Biology 52(6): 1169-1180.
- Girard G.A.O., Roussis A., Gultyaev A.P., Pleij C.W.A. & Spaink H.P. (2003), Structural motifs in the RNA encoded by the early nodulation gene enod40 of soybean, Nucleic Acids Research 31(17): 5003-5015.
- Bladergroen M.R., Badelt K. & Spaink H.P. (2003), Infection-blocking genes of a symbiotic Rhizobium leguminosarum strain that are involved in temperature-dependent protein secretion, Molecular Plant-Microbe Interactions 16(1): 53-64.
- Maraschin S.F., Louwerse J.D., Lamers G.E., Spaink H.P. & Wang M. (2003), Tissue-specific expression of 14-3-3 isoforms during barley microspore and zygotic embryogenesis, Acta Biologica Cracoviensia: Series Botanica 45(1): 103-106.
- Snaar B.E., Krens S.F.G., Robina I., Wang L.X. & Spaink H.P. (2003), Specific activation of ERK pathways by chitin oligosaccharides in embryonic zebrafish cell lines, Glycobiology 13(10): 725-732.
- Noreen S., Schlaman W.R.M., Bellogin R.A., Buendia-Claveria A.M., Espuny M.R., Harteveld M., Medina C., Ollero F.J., Olsthoorn M.M.A., Soria-Diaz M.E., Spaink H.P., Temprano F., Thomas-Oates J., Vinardell J.M., Yang S.S., Zhang H.Y. & Ruiz-Sainz J.E. (2003), Alfalfa nodulation by Sinorhizobium fredii does not require sulfated Nod-factors, Functional Plant Biology 30: 1219-1232.
- Flemetakis E., Agalou A., Kavroulakis N., Dimou M., Martsikovskaya A., Slater A., Spaink H.P., Roussis A. & Katinakis P. (2002), Lotus japonicus gene ljsbp is highly conserved among plants and animals and encodes a homologue to the mammalian selenium-binding proteins, Molecular Plant-Microbe Interactions 15(4): 313-322.
- Bladergroen M.R. & Spaink H.P. (2002), Avirulence factors from symbiotic bacteria. In: Leong S.A., Allen C. & Triplett E.W. (red.), Biology of plant-microbe interactions. St. Paul, MN, USA: International Society for Molecular Plant-Microbe Interactions. 164-166.
- Schmidt K.A., Henkel C.V., Rozenberg G. & Spaink H.P. (2002), Experimental Aspects of DNA computing by blocking: use of fluoresence techniques for detection. In: Kraayenhof R., Visser A.J.W.G. & Gerritsen H.C. (red.), Fluorescnce Spectroscopy, Imaging and Probes. Heidelberg: Springer Verlag. 123-128.
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- Spaink H.P. (2000), Root nodulation and infection factors produced by rhizobial bacteria, Annual Review of Microbiology 54: 257-288.
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- Dekkers L.C., Bloemendaal C.J.P., Weger L.A. de, Wijffelman C.A., Spaink H.P. & Lugtenberg E.J.J. (1998), A two-component system plays an important role in the root-colonizing ability of Pseudomonas fluorescens strain WCS365, Molecular Plant-Microbe Interactions 11(1): 45-56.
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- Bakkers J., Semino C.E., Stroband H., Kijne J.W., Robbins P.W. & Spaink H.P. (1997), An important developmental role for oligosaccharides during early embryogenesis of cyprinid fish, Proceedings of the National Academy of Sciences 94(15): 7982-7986.
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