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1.
2.

Substrate requirements for let-7 function in the developing zebrafish embryo.

Kloosterman WP, Wienholds E, Ketting RF, Plasterk RH.

Nucleic Acids Res. 2016 Jul 8;44(12):5993. doi: 10.1093/nar/gkw173. Epub 2016 Mar 11. No abstract available.

3.

The zebrafish reference genome sequence and its relationship to the human genome.

Howe K, Clark MD, Torroja CF, Torrance J, Berthelot C, Muffato M, Collins JE, Humphray S, McLaren K, Matthews L, McLaren S, Sealy I, Caccamo M, Churcher C, Scott C, Barrett JC, Koch R, Rauch GJ, White S, Chow W, Kilian B, Quintais LT, Guerra-Assunção JA, Zhou Y, Gu Y, Yen J, Vogel JH, Eyre T, Redmond S, Banerjee R, Chi J, Fu B, Langley E, Maguire SF, Laird GK, Lloyd D, Kenyon E, Donaldson S, Sehra H, Almeida-King J, Loveland J, Trevanion S, Jones M, Quail M, Willey D, Hunt A, Burton J, Sims S, McLay K, Plumb B, Davis J, Clee C, Oliver K, Clark R, Riddle C, Elliot D, Threadgold G, Harden G, Ware D, Begum S, Mortimore B, Kerry G, Heath P, Phillimore B, Tracey A, Corby N, Dunn M, Johnson C, Wood J, Clark S, Pelan S, Griffiths G, Smith M, Glithero R, Howden P, Barker N, Lloyd C, Stevens C, Harley J, Holt K, Panagiotidis G, Lovell J, Beasley H, Henderson C, Gordon D, Auger K, Wright D, Collins J, Raisen C, Dyer L, Leung K, Robertson L, Ambridge K, Leongamornlert D, McGuire S, Gilderthorp R, Griffiths C, Manthravadi D, Nichol S, Barker G, Whitehead S, Kay M, Brown J, Murnane C, Gray E, Humphries M, Sycamore N, Barker D, Saunders D, Wallis J, Babbage A, Hammond S, Mashreghi-Mohammadi M, Barr L, Martin S, Wray P, Ellington A, Matthews N, Ellwood M, Woodmansey R, Clark G, Cooper J, Tromans A, Grafham D, Skuce C, Pandian R, Andrews R, Harrison E, Kimberley A, Garnett J, Fosker N, Hall R, Garner P, Kelly D, Bird C, Palmer S, Gehring I, Berger A, Dooley CM, Ersan-Ürün Z, Eser C, Geiger H, Geisler M, Karotki L, Kirn A, Konantz J, Konantz M, Oberländer M, Rudolph-Geiger S, Teucke M, Lanz C, Raddatz G, Osoegawa K, Zhu B, Rapp A, Widaa S, Langford C, Yang F, Schuster SC, Carter NP, Harrow J, Ning Z, Herrero J, Searle SM, Enright A, Geisler R, Plasterk RH, Lee C, Westerfield M, de Jong PJ, Zon LI, Postlethwait JH, Nüsslein-Volhard C, Hubbard TJ, Roest Crollius H, Rogers J, Stemple DL.

Nature. 2013 Apr 25;496(7446):498-503. doi: 10.1038/nature12111. Epub 2013 Apr 17. Erratum in: Nature. 2014 Jan 9;505(7482):248. Cooper, James [corrected to Cooper, James D]; Eliott, David [corrected to Elliot, David]; Mortimer, Beverly [corrected to Mortimore, Beverley]; Begum, Sharmin [added]; Lloyd, Christine [added]; Lanz, Christa [added]; Raddatz, Günter [added]; Schuster, Ste.

4.

Transposons.

Plasterk RHA, van Luenen HGAM.

In: Riddle DL, Blumenthal T, Meyer BJ, Priess JR, editors. C. elegans II. 2nd edition. Cold Spring Harbor (NY): Cold Spring Harbor Laboratory Press; 1997. No abstract available. Chapter 5.

5.

Shotgun cloning of transposon insertions in the genome of Caenorhabditis elegans.

van der Linden AM, Plasterk RH.

Comp Funct Genomics. 2004;5(3):225-9. doi: 10.1002/cfg.392.

6.

Proteins interacting with Caenorhabditis elegans Galpha subunits.

Cuppen E, van der Linden AM, Jansen G, Plasterk RH.

Comp Funct Genomics. 2003;4(5):479-91. doi: 10.1002/cfg.318.

7.

C. elegans model identifies genetic modifiers of alpha-synuclein inclusion formation during aging.

van Ham TJ, Thijssen KL, Breitling R, Hofstra RM, Plasterk RH, Nollen EA.

PLoS Genet. 2008 Mar 21;4(3):e1000027. doi: 10.1371/journal.pgen.1000027.

8.

RAP-1 and the RAL-1/exocyst pathway coordinate hypodermal cell organization in Caenorhabditis elegans.

Frische EW, Pellis-van Berkel W, van Haaften G, Cuppen E, Plasterk RH, Tijsterman M, Bos JL, Zwartkruis FJ.

EMBO J. 2007 Dec 12;26(24):5083-92. Epub 2007 Nov 8.

9.

Structural features of small RNA precursors determine Argonaute loading in Caenorhabditis elegans.

Steiner FA, Hoogstrate SW, Okihara KL, Thijssen KL, Ketting RF, Plasterk RH, Sijen T.

Nat Struct Mol Biol. 2007 Oct;14(10):927-33. Epub 2007 Sep 23.

PMID:
17891148
10.

The TWIST1 oncogene is a direct target of hypoxia-inducible factor-2alpha.

Gort EH, van Haaften G, Verlaan I, Groot AJ, Plasterk RH, Shvarts A, Suijkerbuijk KP, van Laar T, van der Wall E, Raman V, van Diest PJ, Tijsterman M, Vooijs M.

Oncogene. 2008 Mar 6;27(11):1501-10. Epub 2007 Sep 17.

PMID:
17873906
11.

LPIN2 is associated with type 2 diabetes, glucose metabolism, and body composition.

Aulchenko YS, Pullen J, Kloosterman WP, Yazdanpanah M, Hofman A, Vaessen N, Snijders PJ, Zubakov D, Mackay I, Olavesen M, Sidhu B, Smith VE, Carey A, Berezikov E, Uitterlinden AG, Plasterk RH, Oostra BA, van Duijn CM.

Diabetes. 2007 Dec;56(12):3020-6. Epub 2007 Sep 5.

12.

MicroRNAs show a wide diversity of expression profiles in the developing and mature central nervous system.

Kapsimali M, Kloosterman WP, de Bruijn E, Rosa F, Plasterk RH, Wilson SW.

Genome Biol. 2007;8(8):R173.

13.

Targeted inhibition of miRNA maturation with morpholinos reveals a role for miR-375 in pancreatic islet development.

Kloosterman WP, Lagendijk AK, Ketting RF, Moulton JD, Plasterk RH.

PLoS Biol. 2007 Aug;5(8):e203.

14.

Mechanistic insights and identification of two novel factors in the C. elegans NMD pathway.

Longman D, Plasterk RH, Johnstone IL, Cáceres JF.

Genes Dev. 2007 May 1;21(9):1075-85. Epub 2007 Apr 16.

15.

A role for Piwi and piRNAs in germ cell maintenance and transposon silencing in Zebrafish.

Houwing S, Kamminga LM, Berezikov E, Cronembold D, Girard A, van den Elst H, Filippov DV, Blaser H, Raz E, Moens CB, Plasterk RH, Hannon GJ, Draper BW, Ketting RF.

Cell. 2007 Apr 6;129(1):69-82.

16.

Efficient target-selected mutagenesis in Caenorhabditis elegans: toward a knockout for every gene.

Cuppen E, Gort E, Hazendonk E, Mudde J, van de Belt J, Nijman IJ, Guryev V, Plasterk RH.

Genome Res. 2007 May;17(5):649-58. Epub 2007 Apr 6.

17.

The Caenorhabditis elegans Argonautes ALG-1 and ALG-2: almost identical yet different.

Tops BB, Plasterk RH, Ketting RF.

Cold Spring Harb Symp Quant Biol. 2006;71:189-94.

PMID:
17381296
18.

HIV integrase: a target for drug discovery.

Lutzke RA, Plasterk RH.

Genes Funct. 1997 Dec;1(5-6):289-307. Review.

PMID:
17366700
19.

A Caenorhabditis elegans wild type defies the temperature-size rule owing to a single nucleotide polymorphism in tra-3.

Kammenga JE, Doroszuk A, Riksen JA, Hazendonk E, Spiridon L, Petrescu AJ, Tijsterman M, Plasterk RH, Bakker J.

PLoS Genet. 2007 Mar 2;3(3):e34. Epub 2007 Jan 9.

20.

Q and A: Ronald Plasterk. Interviewed by Alison Abbott.

Plasterk R.

Nature. 2007 Mar 1;446(7131):7. No abstract available.

PMID:
17330008
21.

APL-1, a Caenorhabditis elegans protein related to the human beta-amyloid precursor protein, is essential for viability.

Hornsten A, Lieberthal J, Fadia S, Malins R, Ha L, Xu X, Daigle I, Markowitz M, O'Connor G, Plasterk R, Li C.

Proc Natl Acad Sci U S A. 2007 Feb 6;104(6):1971-6. Epub 2007 Jan 31.

22.

Mapping determinants of gene expression plasticity by genetical genomics in C. elegans.

Li Y, Alvarez OA, Gutteling EW, Tijsterman M, Fu J, Riksen JA, Hazendonk E, Prins P, Plasterk RH, Jansen RC, Breitling R, Kammenga JE.

PLoS Genet. 2006 Dec 29;2(12):e222. Epub 2006 Nov 13.

23.

Secondary siRNAs result from unprimed RNA synthesis and form a distinct class.

Sijen T, Steiner FA, Thijssen KL, Plasterk RH.

Science. 2007 Jan 12;315(5809):244-7. Epub 2006 Dec 7.

24.

Generation of medaka gene knockout models by target-selected mutagenesis.

Taniguchi Y, Takeda S, Furutani-Seiki M, Kamei Y, Todo T, Sasado T, Deguchi T, Kondoh H, Mudde J, Yamazoe M, Hidaka M, Mitani H, Toyoda A, Sakaki Y, Plasterk RH, Cuppen E.

Genome Biol. 2006;7(12):R116.

25.

Knocking out the Argonautes.

Steiner FA, Plasterk RH.

Cell. 2006 Nov 17;127(4):667-8.

26.

Diversity of microRNAs in human and chimpanzee brain.

Berezikov E, Thuemmler F, van Laake LW, Kondova I, Bontrop R, Cuppen E, Plasterk RH.

Nat Genet. 2006 Dec;38(12):1375-7. Epub 2006 Oct 29.

PMID:
17072315
27.

The diverse functions of microRNAs in animal development and disease.

Kloosterman WP, Plasterk RH.

Dev Cell. 2006 Oct;11(4):441-50. Review.

28.

Differences in vertebrate microRNA expression.

Ason B, Darnell DK, Wittbrodt B, Berezikov E, Kloosterman WP, Wittbrodt J, Antin PB, Plasterk RH.

Proc Natl Acad Sci U S A. 2006 Sep 26;103(39):14385-9. Epub 2006 Sep 18.

29.

Mouse microRNA profiles determined with a new and sensitive cloning method.

Takada S, Berezikov E, Yamashita Y, Lagos-Quintana M, Kloosterman WP, Enomoto M, Hatanaka H, Fujiwara S, Watanabe H, Soda M, Choi YL, Plasterk RH, Cuppen E, Mano H.

Nucleic Acids Res. 2006;34(17):e115. Epub 2006 Sep 14.

30.

Many novel mammalian microRNA candidates identified by extensive cloning and RAKE analysis.

Berezikov E, van Tetering G, Verheul M, van de Belt J, van Laake L, Vos J, Verloop R, van de Wetering M, Guryev V, Takada S, van Zonneveld AJ, Mano H, Plasterk R, Cuppen E.

Genome Res. 2006 Oct;16(10):1289-98. Epub 2006 Sep 5.

31.

Gene expression: long-term gene silencing by RNAi.

Vastenhouw NL, Brunschwig K, Okihara KL, Müller F, Tijsterman M, Plasterk RH.

Nature. 2006 Aug 24;442(7105):882.

PMID:
16929289
32.

Identification of conserved pathways of DNA-damage response and radiation protection by genome-wide RNAi.

van Haaften G, Romeijn R, Pothof J, Koole W, Mullenders LH, Pastink A, Plasterk RH, Tijsterman M.

Curr Biol. 2006 Jul 11;16(13):1344-50.

33.

Approaches to microRNA discovery.

Berezikov E, Cuppen E, Plasterk RH.

Nat Genet. 2006 Jun;38 Suppl:S2-7. Review.

PMID:
16736019
34.

Cloning and expression of new microRNAs from zebrafish.

Kloosterman WP, Steiner FA, Berezikov E, de Bruijn E, van de Belt J, Verheul M, Cuppen E, Plasterk RH.

Nucleic Acids Res. 2006 May 12;34(9):2558-69. Print 2006.

35.

Chemical genetics reveals an RGS/G-protein role in the action of a compound.

Fitzgerald K, Tertyshnikova S, Moore L, Bjerke L, Burley B, Cao J, Carroll P, Choy R, Doberstein S, Dubaquie Y, Franke Y, Kopczynski J, Korswagen H, Krystek SR, Lodge NJ, Plasterk R, Starrett J, Stouch T, Thalody G, Wayne H, van der Linden A, Zhang Y, Walker SG, Cockett M, Wardwell-Swanson J, Ross-Macdonald P, Kindt RM.

PLoS Genet. 2006 Apr;2(4):e57. Epub 2006 Apr 21.

36.

Genetic variation in the zebrafish.

Guryev V, Koudijs MJ, Berezikov E, Johnson SL, Plasterk RH, van Eeden FJ, Cuppen E.

Genome Res. 2006 Apr;16(4):491-7. Epub 2006 Mar 13.

37.

Micro RNAs in animal development.

Plasterk RH.

Cell. 2006 Mar 10;124(5):877-81.

38.

Generation of gene knockouts and mutant models in the laboratory rat by ENU-driven target-selected mutagenesis.

Smits BM, Mudde JB, van de Belt J, Verheul M, Olivier J, Homberg J, Guryev V, Cools AR, Ellenbroek BA, Plasterk RH, Cuppen E.

Pharmacogenet Genomics. 2006 Mar;16(3):159-69.

PMID:
16495775
39.

Isolation of RNA from C. elegans.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4321. doi: 10.1101/pdb.prot4321. No abstract available.

PMID:
22485697
40.

Detection of si/miRNA in C. elegans by Northern Blot.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4320. doi: 10.1101/pdb.prot4320. No abstract available.

PMID:
22485696
41.

Detection of siRNA in C. elegans Using RNase Protection.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4319. doi: 10.1101/pdb.prot4319. No abstract available.

PMID:
22485695
42.

Cosuppression in C. elegans.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4318. doi: 10.1101/pdb.prot4318. No abstract available.

PMID:
22485694
43.

Introduction of Double-Stranded RNA in C. elegans by Feeding.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4317. doi: 10.1101/pdb.prot4317. No abstract available.

PMID:
22485693
44.

Introduction of Double-Stranded RNA in C. elegans by Soaking.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4316. doi: 10.1101/pdb.prot4316. No abstract available.

PMID:
22485692
45.

Introduction of Double-Stranded RNA in C. elegans by Injection.

Ketting RF, Tijsterman M, Plasterk RH.

CSH Protoc. 2006 Jun 1;2006(1). pii: pdb.prot4315. doi: 10.1101/pdb.prot4315. No abstract available.

PMID:
22485691
46.

RAKE and LNA-ISH reveal microRNA expression and localization in archival human brain.

Nelson PT, Baldwin DA, Kloosterman WP, Kauppinen S, Plasterk RH, Mourelatos Z.

RNA. 2006 Feb;12(2):187-91. Epub 2005 Dec 22.

47.

In situ detection of miRNAs in animal embryos using LNA-modified oligonucleotide probes.

Kloosterman WP, Wienholds E, de Bruijn E, Kauppinen S, Plasterk RH.

Nat Methods. 2006 Jan;3(1):27-9.

PMID:
16369549
48.

Camels and zebrafish, viruses and cancer: a microRNA update.

Berezikov E, Plasterk RH.

Hum Mol Genet. 2005 Oct 15;14 Spec No. 2:R183-90. Review.

PMID:
16244316
49.

RNA interference, transposon silencing, and cosuppression in the Caenorhabditis elegans germ line: similarities and differences.

Robert VJ, Vastenhouw NL, Plasterk RH.

Cold Spring Harb Symp Quant Biol. 2004;69:397-402. Review. No abstract available.

PMID:
16117673
50.

MicroRNA function in animal development.

Wienholds E, Plasterk RH.

FEBS Lett. 2005 Oct 31;579(26):5911-22. Epub 2005 Aug 10. Review.

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