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Items: 45

1.

Immunomodulatory Effects of Dietary Seaweeds in LPS Challenged Atlantic Salmon Salmo salar as Determined by Deep RNA Sequencing of the Head Kidney Transcriptome.

Palstra AP, Kals J, Blanco Garcia A, Dirks RP, Poelman M.

Front Physiol. 2018 Jun 1;9:625. doi: 10.3389/fphys.2018.00625. eCollection 2018.

2.

Anguillicola crassus infection affects mRNA expression levels in gas gland tissue of European yellow and silver eel.

Schneebauer G, Dirks RP, Pelster B.

PLoS One. 2017 Aug 17;12(8):e0183128. doi: 10.1371/journal.pone.0183128. eCollection 2017.

3.

Rapid de novo assembly of the European eel genome from nanopore sequencing reads.

Jansen HJ, Liem M, Jong-Raadsen SA, Dufour S, Weltzien FA, Swinkels W, Koelewijn A, Palstra AP, Pelster B, Spaink HP, Thillart GEVD, Dirks RP, Henkel CV.

Sci Rep. 2017 Aug 3;7(1):7213. doi: 10.1038/s41598-017-07650-6.

4.

Application of Caenorhabditis elegans (nematode) and Danio rerio embryo (zebrafish) as model systems to screen for developmental and reproductive toxicity of Piperazine compounds.

Racz PI, Wildwater M, Rooseboom M, Kerkhof E, Pieters R, Yebra-Pimentel ES, Dirks RP, Spaink HP, Smulders C, Whale GF.

Toxicol In Vitro. 2017 Oct;44:11-16. doi: 10.1016/j.tiv.2017.06.002. Epub 2017 Jun 26.

PMID:
28595837
5.

De novo whole-genome assembly of a wild type yeast isolate using nanopore sequencing.

Liem M, Jansen HJ, Dirks RP, Henkel CV, van Heusden GPH, Lemmers RJLF, Omer T, Shao S, Punt PJ, Spaink HP.

Version 2. F1000Res. 2017 May 3 [revised 2018 Jan 1];6:618. doi: 10.12688/f1000research.11146.2. eCollection 2017.

6.

Differential gene expression in narrow- and broad-headed European glass eels (Anguilla anguilla) points to a transcriptomic link of head shape dimorphism with growth rate and chemotaxis.

De Meyer J, Maes GE, Dirks RP, Adriaens D.

Mol Ecol. 2017 Aug;26(15):3943-3953. doi: 10.1111/mec.14155. Epub 2017 May 18.

PMID:
28437580
7.

A full-body transcriptome and proteome resource for the European common carp.

Kolder IC, van der Plas-Duivesteijn SJ, Tan G, Wiegertjes GF, Forlenza M, Guler AT, Travin DY, Nakao M, Moritomo T, Irnazarow I, den Dunnen JT, Anvar SY, Jansen HJ, Dirks RP, Palmblad M, Lenhard B, Henkel CV, Spaink HP.

BMC Genomics. 2016 Sep 2;17:701. doi: 10.1186/s12864-016-3038-y.

8.

Anguillicola crassus Infection Significantly Affects the Silvering Related Modifications in Steady State mRNA Levels in Gas Gland Tissue of the European Eel.

Pelster B, Schneebauer G, Dirks RP.

Front Physiol. 2016 May 23;7:175. doi: 10.3389/fphys.2016.00175. eCollection 2016.

9.

Temperature modulates testis steroidogenesis in European eel.

Peñaranda DS, Morini M, Tveiten H, Vílchez MC, Gallego V, Dirks RP, van den Thillart GE, Pérez L, Asturiano JF.

Comp Biochem Physiol A Mol Integr Physiol. 2016 Jul;197:58-67. doi: 10.1016/j.cbpa.2016.03.012. Epub 2016 Mar 21.

10.

The Olfactory Transcriptome and Progression of Sexual Maturation in Homing Chum Salmon Oncorhynchus keta.

Palstra AP, Fukaya K, Chiba H, Dirks RP, Planas JV, Ueda H.

PLoS One. 2015 Sep 23;10(9):e0137404. doi: 10.1371/journal.pone.0137404. eCollection 2015.

11.

Changes in ovarian gene expression profiles and plasma hormone levels in maturing European eel (Anguilla anguilla); Biomarkers for broodstock selection.

Burgerhout E, Minegishi Y, Brittijn SA, de Wijze DL, Henkel CV, Jansen HJ, Spaink HP, Dirks RP, van den Thillart GEEJM.

Gen Comp Endocrinol. 2016 Jan 1;225:185-196. doi: 10.1016/j.ygcen.2015.08.006. Epub 2015 Aug 6.

PMID:
26255685
12.

In- and outdoor reproduction of first generation common sole Solea solea under a natural photothermal regime: Temporal progression of sexual maturation assessed by monitoring plasma steroids and gonadotropin mRNA expression.

Palstra AP, Blok MC, Kals J, Blom E, Tuinhof-Koelma N, Dirks RP, Forlenza M, Blonk RJ.

Gen Comp Endocrinol. 2015 Sep 15;221:183-92. doi: 10.1016/j.ygcen.2014.12.004. Epub 2015 Jan 9.

PMID:
25583580
13.

Testing tuberculosis drug efficacy in a zebrafish high-throughput translational medicine screen.

Ordas A, Raterink RJ, Cunningham F, Jansen HJ, Wiweger MI, Jong-Raadsen S, Bos S, Bates RH, Barros D, Meijer AH, Vreeken RJ, Ballell-Pages L, Dirks RP, Hankemeier T, Spaink HP.

Antimicrob Agents Chemother. 2015 Feb;59(2):753-62. doi: 10.1128/AAC.03588-14. Epub 2014 Nov 10.

14.

Identification of molecular markers in pectoral fin to predict artificial maturation of female European eels (Anguilla anguilla).

Dirks RP, Burgerhout E, Brittijn SA, de Wijze DL, Ozupek H, Tuinhof-Koelma N, Minegishi Y, Jong-Raadsen SA, Spaink HP, van den Thillart GE.

Gen Comp Endocrinol. 2014 Aug 1;204:267-76. doi: 10.1016/j.ygcen.2014.06.023. Epub 2014 Jun 30.

PMID:
24992558
15.

The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system.

Vonk FJ, Casewell NR, Henkel CV, Heimberg AM, Jansen HJ, McCleary RJ, Kerkkamp HM, Vos RA, Guerreiro I, Calvete JJ, Wüster W, Woods AE, Logan JM, Harrison RA, Castoe TA, de Koning AP, Pollock DD, Yandell M, Calderon D, Renjifo C, Currier RB, Salgado D, Pla D, Sanz L, Hyder AS, Ribeiro JM, Arntzen JW, van den Thillart GE, Boetzer M, Pirovano W, Dirks RP, Spaink HP, Duboule D, McGlinn E, Kini RM, Richardson MK.

Proc Natl Acad Sci U S A. 2013 Dec 17;110(51):20651-6. doi: 10.1073/pnas.1314702110. Epub 2013 Dec 2.

16.

Advances in genomics of bony fish.

Spaink HP, Jansen HJ, Dirks RP.

Brief Funct Genomics. 2014 Mar;13(2):144-56. doi: 10.1093/bfgp/elt046. Epub 2013 Nov 29. Review.

17.

Parallel deep transcriptome and proteome analysis of zebrafish larvae.

Palmblad M, Henkel CV, Dirks RP, Meijer AH, Deelder AM, Spaink HP.

BMC Res Notes. 2013 Oct 24;6:428. doi: 10.1186/1756-0500-6-428.

18.

The pituitary gland of the European eel reveals massive expression of genes involved in the melanocortin system.

Ager-Wick E, Dirks RP, Burgerhout E, Nourizadeh-Lillabadi R, de Wijze DL, Spaink HP, van den Thillart GE, Tsukamoto K, Dufour S, Weltzien FA, Henkel CV.

PLoS One. 2013 Oct 10;8(10):e77396. doi: 10.1371/journal.pone.0077396. eCollection 2013.

19.

Male European eels are highly efficient long distance swimmers: effects of endurance swimming on maturation.

Burgerhout E, Brittijn SA, Tudorache C, de Wijze DL, Dirks RP, van den Thillart GE.

Comp Biochem Physiol A Mol Integr Physiol. 2013 Nov;166(3):522-7. doi: 10.1016/j.cbpa.2013.08.002. Epub 2013 Aug 17.

PMID:
23962432
20.

Robotic injection of zebrafish embryos for high-throughput screening in disease models.

Spaink HP, Cui C, Wiweger MI, Jansen HJ, Veneman WJ, Marín-Juez R, de Sonneville J, Ordas A, Torraca V, van der Ent W, Leenders WP, Meijer AH, Snaar-Jagalska BE, Dirks RP.

Methods. 2013 Aug 15;62(3):246-54. doi: 10.1016/j.ymeth.2013.06.002. Epub 2013 Jun 11.

21.

First draft genome sequence of the Japanese eel, Anguilla japonica.

Henkel CV, Dirks RP, de Wijze DL, Minegishi Y, Aoyama J, Jansen HJ, Turner B, Knudsen B, Bundgaard M, Hvam KL, Boetzer M, Pirovano W, Weltzien FA, Dufour S, Tsukamoto K, Spaink HP, van den Thillart GE.

Gene. 2012 Dec 15;511(2):195-201. doi: 10.1016/j.gene.2012.09.064. Epub 2012 Sep 29.

22.

Comparison of the exomes of common carp (Cyprinus carpio) and zebrafish (Danio rerio).

Henkel CV, Dirks RP, Jansen HJ, Forlenza M, Wiegertjes GF, Howe K, van den Thillart GE, Spaink HP.

Zebrafish. 2012 Jun;9(2):59-67. doi: 10.1089/zeb.2012.0773.

23.

Quantitative bioassays for measuring biologically functional gonadotropins based on eel gonadotropic receptors.

Minegishi Y, Dirks RP, de Wijze DL, Brittijn SA, Burgerhout E, Spaink HP, van den Thillart GE.

Gen Comp Endocrinol. 2012 Aug 1;178(1):145-52. doi: 10.1016/j.ygcen.2012.04.030. Epub 2012 May 9.

PMID:
22580328
24.

Genomics in eels--towards aquaculture and biology.

Minegishi Y, Henkel CV, Dirks RP, van den Thillart GE.

Mar Biotechnol (NY). 2012 Oct;14(5):583-90. doi: 10.1007/s10126-012-9444-5. Epub 2012 Apr 17.

25.

Primitive duplicate Hox clusters in the European eel's genome.

Henkel CV, Burgerhout E, de Wijze DL, Dirks RP, Minegishi Y, Jansen HJ, Spaink HP, Dufour S, Weltzien FA, Tsukamoto K, van den Thillart GE.

PLoS One. 2012;7(2):e32231. doi: 10.1371/journal.pone.0032231. Epub 2012 Feb 24.

26.

An atypical unfolded protein response in heat shocked cells.

Heldens L, Hensen SM, Onnekink C, van Genesen ST, Dirks RP, Lubsen NH.

PLoS One. 2011;6(8):e23512. doi: 10.1371/journal.pone.0023512. Epub 2011 Aug 10.

27.

First artificial hybrid of the eel species Anguilla australis and Anguilla anguilla.

Burgerhout E, Brittijn SA, Kurwie T, Decker P, Dirks RP, Palstra AP, Spaink HP, Van den Thillart GE.

BMC Dev Biol. 2011 Mar 13;11:16. doi: 10.1186/1471-213X-11-16.

28.

A high-throughput screen for tuberculosis progression.

Carvalho R, de Sonneville J, Stockhammer OW, Savage ND, Veneman WJ, Ottenhoff TH, Dirks RP, Meijer AH, Spaink HP.

PLoS One. 2011 Feb 16;6(2):e16779. doi: 10.1371/journal.pone.0016779.

29.

Co-chaperones are limiting in a depleted chaperone network.

Heldens L, Dirks RP, Hensen SM, Onnekink C, van Genesen ST, Rustenburg F, Lubsen NH.

Cell Mol Life Sci. 2010 Dec;67(23):4035-48. doi: 10.1007/s00018-010-0430-7. Epub 2010 Jun 18.

30.

Manipulating heat shock factor-1 in Xenopus tadpoles: neuronal tissues are refractory to exogenous expression.

Dirks RP, van Geel R, Hensen SM, van Genesen ST, Lubsen NH.

PLoS One. 2010 Apr 13;5(4):e10158. doi: 10.1371/journal.pone.0010158.

31.

A DNAJB chaperone subfamily with HDAC-dependent activities suppresses toxic protein aggregation.

Hageman J, Rujano MA, van Waarde MA, Kakkar V, Dirks RP, Govorukhina N, Oosterveld-Hut HM, Lubsen NH, Kampinga HH.

Mol Cell. 2010 Feb 12;37(3):355-69. doi: 10.1016/j.molcel.2010.01.001.

32.

Differential neuroendocrine expression of multiple brain-derived neurotrophic factor transcripts.

Kidane AH, Heinrich G, Dirks RP, de Ruyck BA, Lubsen NH, Roubos EW, Jenks BG.

Endocrinology. 2009 Mar;150(3):1361-8. doi: 10.1210/en.2008-0993. Epub 2008 Nov 13.

PMID:
19008311
33.

Urochordate betagamma-crystallin and the evolutionary origin of the vertebrate eye lens.

Shimeld SM, Purkiss AG, Dirks RP, Bateman OA, Slingsby C, Lubsen NH.

Curr Biol. 2005 Sep 20;15(18):1684-9.

34.

Sequence and functional conservation of the intergenic region between the head-to-head genes encoding the small heat shock proteins alphaB-crystallin and HspB2 in the mammalian lineage.

Doerwald L, van Rheede T, Dirks RP, Madsen O, Rexwinkel R, van Genesen ST, Martens GJ, de Jong WW, Lubsen NH.

J Mol Evol. 2004 Nov;59(5):674-86.

PMID:
15693623
35.

Novel fibroblast growth factor 2 transcripts are expressed in mouse embryos.

Dirks RP, Potter SJ, Griep AE.

Biochem Biophys Res Commun. 2001 Oct 5;287(4):900-9.

PMID:
11573950
36.

Extralenticular expression of the rodent betaB2-crystallin gene.

Dirks RP, Van Genesen ST, KrUse JJ, Jorissen L, Lubsen NH.

Exp Eye Res. 1998 Feb;66(2):267-9. No abstract available.

PMID:
9533853
37.

Identification of regulatory sequences in the promoter of the PDGF B-chain gene in malignant mesothelioma cell lines.

Prins JB, Langerak AW, Dirks RP, Van der Linden-Van Beurden CA, De Laat PA, Bloemers HP, Versnel MA.

Biochim Biophys Acta. 1996 Dec 16;1317(3):223-32.

38.
39.
40.

A novel human c-sis mRNA species is transcribed from a promoter in c-sis intron 1 and contains the code for an alternative PDGF B-like protein.

Dirks RP, Onnekink C, Jansen HJ, de Jong A, Bloemers HP.

Nucleic Acids Res. 1995 Aug 11;23(15):2815-22.

41.
42.

Signals controlling the expression of PDGF.

Dirks RP, Bloemers HP.

Mol Biol Rep. 1995-1996;22(1):1-24. Review.

PMID:
8858568
44.
45.

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