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Hubrecht publications

2011

Apschner A, Schulte-Merker S, Witten PE., Not all bones are created equal - using zebrafish and other
teleost species in osteogenesis research., Methods Cell Biol. 2011;105:239-55.

Arnold K, Sarkar A, Yram MA, Polo JM, Bronson R, Sengupta S, Seandel M, Geijsen N, Hochedlinger K., Sox2(+) adult stem and progenitor cells are important for tissue regeneration and survival of mice., Cell Stem Cell. 2011 Oct 4;9(4):317-29.

Bakkers J, Zebrafish as a model to study cardiac development and human cardiac disease., Cardiovasc Res. 2011 Jul 15;91(2):279-88.

Basak O, Clevers H., Neural stem cells for diabetes cell-based therapy., EMBO Mol Med. 2011 Dec;3(12):698-700.

Beerling E, Ritsma L, Vrisekoop N, Derksen PW, van Rheenen J., Intravital microscopy: new insights into metastasis of tumors., J Cell Sci. 2011 Feb 1;124(Pt 3):299-310.

Berezikov E, Evolution of microRNA diversity and regulation in animals., Nat Rev Genet. 2011 Nov 18;12(12):846-60

Berezikov E, Robine N, Samsonova A, Westholm JO, Naqvi A, Hung JH, Okamura K, Dai Q, Bortolamiol-Becet D, Martin R, Zhao Y, Zamore PD, Hannon GJ, Marra MA, Weng Z, Perrimon N, Lai EC., Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence., Genome Res. 2011 Feb;21(2):203-15.

Boogerd CJ, Wong LY, van den Boogaard M, Bakker ML, Tessadori F, Bakkers J, 't Hoen PA, Moorman AF, Christoffels VM, Barnett P., Sox4 mediates Tbx3 transcriptional regulation of the gap junction protein Cx43., Cell Mol Life Sci. 2011 Dec;68(23):3949-61.

Bos FL, Caunt M, Peterson-Maduro J, Planas-Paz L, Kowalski J, Karpanen T, van Impel A, Tong R, Ernst JA, Korving J, van Es JH, Lammert E, Duckers HJ, Schulte-Merker S., CCBE1 Is Essential for Mammalian Lymphatic Vascular Development and Enhances the Lymphangiogenic Effect of Vascular Endothelial Growth Factor-C In Vivo., Circ Res. 2011 Aug 19;109(5):486-91.

Bos FL., Genetic regulation of angiogenesis and lymphangiogenesis, Thesis, Erasmus Universiteit Rotterdam

Bozic M, de Rooij J, Parisi E, Ortega MR, Fernandez E, Valdivielso JM., Glutamatergic signaling maintains the epithelial phenotype of proximal tubular cells., J Am Soc Nephrol. 2011 Jun;22(6):1099-111.

Bredenoord AL, Kroes HY, Cuppen E, Parker M, van Delden JJ., Disclosure of individual genetic data to research participants: the debate reconsidered., Trends Genet. 2011 27(2):41-7

Buske P, Galle J, Barker N, Aust G, Clevers H, Loeffler M., A comprehensive model of the spatio-temporal stem cell and tissue organisation in the intestinal crypt., PLoS Comput Biol. 2011 Jan 6;7(1):e1001045.

Bussmann J, Schulte-Merker S., Rapid BAC selection for tol2-mediated transgenesis in zebrafish., Development. 2011 Oct;138(19):4327-32.

Carey BW, Markoulaki S, Hanna JH, Faddah DA, Buganim Y, Kim J, Ganz K, Steine EJ, Cassady JP, Creyghton MP, Welstead GG, Gao Q, Jaenisch R., Reprogramming factor stoichiometry influences the epigenetic state and biological properties of induced pluripotent stem cells., Cell Stem Cell. 2011 Dec 2;9(6):588-98.

Chan JS, Snoeren EM, Cuppen E, Waldinger MD, Olivier B, Oosting RS., The serotonin transporter plays an important role in male sexual behavior: a study in serotonin transporter knockout rats., J Sex Med. 2011 Jan;8(1):97-108.

Cheng C, Tempel D, Den Dekker WK, Haasdijk R, Chrifi I, Bos FL, Wagtmans K, van de Kamp EH, Blonden L, Biessen EA, Moll F, Pasterkamp G, Serruys PW, Schulte-Merker S, Duckers HJ., Ets2 determines the inflammatory state of endothelial cells in advanced atherosclerotic lesions., Circ Res. 2011 Aug 5;109(4):382-95.

Clark MD, Guryev V, Bruijn E, Nijman IJ, Tada M, Wilson C, Deloukas P, Postlethwait JH, Cuppen E, Stemple DL., Single nucleotide polymorphism (SNP) panels for rapid positional cloning in zebrafish., Methods Cell Biol. 2011;104:219-35.

Clevers H., The cancer stem cell: premises, promises and challenges., Nat Med. 2011 Mar;17(3):313-9.

Dalerba P, Kalisky T, Sahoo D, Rajendran PS, Rothenberg ME, Leyrat AA, Sim S, Okamoto J, Johnston DM, Qian D, Zabala M, Bueno J, Neff NF, Wang J, Shelton AA, Visser B, Hisamori S, Shimono Y, van de Wetering M, Clevers H, Clarke MF, Quake SR., Single-cell dissection of transcriptional heterogeneity in human colon tumors., Nat Biotechnol. 2011 Nov 13;29(12):1120-7.

de Lau W, Barker N, Low TY, Koo BK, Li VS, Teunissen H, Kujala P, Haegebarth A, Peters PJ, van de Wetering M, Stange DE, van Es J, Guardavaccaro D, Schasfoort RB, Mohri Y, Nishimori K, Mohammed S, Heck AJ, Clevers H., Lgr5 homologues associate with Wnt receptors and mediate R-spondin signalling., Nature. 2011 Aug 18;476(7360):293-7

Demarque MD, Nacerddine K, Neyret-Kahn H, Andrieux A, Danenberg E, Jouvion G, Bomme P, Hamard G, Romagnolo B, Terris B, Cumano A, Barker N, Clevers H, Dejean A, Sumoylation by Ubc9 Regulates the Stem Cell Compartment and Structure and Function of the Intestinal Epithelium in Mice., Gastroenterology. 2011 Jan;140(1):286-96.

Di Palma S, Stange D, van de Wetering M, Clevers H, Heck AJ, Mohammed S., Highly Sensitive Proteome Analysis of FACS-Sorted Adult Colon Stem Cells., J Proteome Res. 2011 Aug 5;10(8):3814-9.

Eacker SM, Keuss MJ, Berezikov E, Dawson VL, Dawson TM., Neuronal activity regulates hippocampal miRNA expression., PLoS One. 2011;6(10):e25068

Edwards CJ, Ginja C, Kantanen J, Perez-Pardal L, Tresset A, Stock F; European Cattle Genetic Diversity Consortium, Gama LT, Penedo MC, Bradley DG, Lenstra JA, and Nijman, IJ., Dual origins of dairy cattle farming-evidence from a comprehensive survey of European Y-chromosomal variation., PLoS One. 2011 Jan 6;6(1):e15922.

Emmink BL, Van Houdt WJ, Vries RG, Hoogwater FJ, Govaert KM, Verheem A, Nijkamp MW, Steller EJ, Jimenez CR, Clevers H, Rinkes IH, Kranenburg O., Differentiated Human Colorectal Cancer Cells Protect Tumor-Initiating Cells from Irinotecan., Gastroenterology. 2011 Jul;141(1):269-78.

Evangelou E, Valdes AM, Kerkhof HJ, Styrkarsdottir U, Zhu Y, Meulenbelt I, Lories RJ, Karassa FB, Tylzanowski P, Bos SD; arcOGEN Consortium, Akune T, Arden NK, Carr A, Chapman K, Cupples LA, Dai J, Deloukas P, Doherty M, Doherty S, Engstrom G, Gonzalez A,, Meta-analysis of genome-wide association studies confirms a susceptibility locus for knee osteoarthritis on chromosome 7q22., Ann Rheum Dis. 2011 Feb;70(2):349-55.

Farhan H, Rabouille C., Signalling to and from the secretory pathway., J Cell Sci. 2011 Jan 15;124(Pt 2):171-80.

Fiedler J, Jazbutyte V, Kirchmaier BC, Gupta SK, Lorenzen J, Hartmann D, Galuppo P, Kneitz S, Pena JT, Sohn-Lee C, Loyer X, Soutschek J, Brand T, Tuschl T, Heineke J, Martin U, Schulte-Merker S, Ertl G, Engelhardt S, Bauersachs J, Thum T., MicroRNA-24 Regulates Vascularity After Myocardial Infarction., Circulation. 2011 Aug 9;124(6):720-30.

Froeling FE, Feig C, Chelala C, Dobson R, Mein CE, Tuveson DA, Clevers H, Hart IR, Kocher HM., Retinoic Acid-Induced Pancreatic Stellate Cell Quiescence Reduces Paracrine Wnt-β-Catenin Signaling to Slow Tumor Progression., Gastroenterology. 2011 Oct;141(4):1486-97

Gerbe F, van Es JH, Makrini L, Brulin B, Mellitzer G, Robine S, Romagnolo B, Shroyer NF, Bourgaux JF, Pignodel C, Clevers H, Jay P., Distinct ATOH1 and Neurog3 requirements define tuft cells as a new secretory cell type in the intestinal epithelium., J Cell Biol. 2011 Mar 7;192(5):767-80.

Ghani S, Riemke P, Schönheit J, Lenze D, Stumm J, Hoogenkamp M, Lagendijk A, Heinz S, Bonifer C, Bakkers J, Abdelilah-Seyfried S, Hummel M, Rosenbauer F., Macrophage development from hematopoietic stem cells requires PU.1 coordinated microRNA expression., Blood. 2011 Aug 25;118(8):2275-84

Giuliani F, Grieve A, Rabouille C., Unconventional secretion: a stress on GRASP., Curr Opin Cell Biol. 2011 Aug;23(4):498-504.

Gjini E, Hekking LH, Küchler A, Saharinen P, Wienholds E, Post JA, Alitalo K, Schulte-Merker S., Zebrafish Tie-2 shares a redundant role with Tie-1 in heart development and regulates vessel integrity., Dis Model Mech. 2011 Jan;4(1):57-66.

Grieve AG, Rabouille C., Golgi bypass: skirting around the heart of classical secretion., Cold Spring Harb Perspect Biol. 2011 Apr 1;3(4).

Gutierrez A, Grebliunaite R, Feng H, Kozakewich E, Zhu S, Guo F, Payne E, Mansour M, Dahlberg SE, Neuberg DS, Hertog J, Prochownik EV, Testa JR, Harris M, Kanki JP, Look AT., Pten mediates Myc oncogene dependence in a conditional zebrafish model of T cell acute lymphoblastic leukemia., J Exp Med. 2011 Aug 1;208(8):1595-603.

Hakim O, Sung MH, Voss TC, Splinter E, John S, Sabo PJ, Thurman RE, Stamatoyannopoulos JA, de Laat W, Hager GL., Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements., Genome Res. 2011 May;21(5):697-706.

Harakalova M, Mokry M, Hrdlickova B, Renkens I, Duran K, van Roekel H, Lansu N, van Roosmalen M, de Bruijn E, Nijman IJ, Kloosterman WP, Cuppen E., Multiplexed array-based and in-solution genomic enrichment for flexible and cost-effective targeted next-generation sequencing., Nat Protoc. 2011 Nov 3;6(12):1870-86.

Harakalova M, Nijman IJ, Medic J, Mokry M, Renkens I, Blankensteijn JD, Kloosterman W, Baas AF, Cuppen E., Genomic DNA Pooling Strategy for Next-Generation Sequencing-Based Rare Variant Discovery in Abdominal Aortic Aneurysm Regions of Interest-Challenges and Limitations., J Cardiovasc Transl Res. 2011 Jun;4(3):271-80

Harterink M, Unraveling the Wnt secretion pathway, Thesis, Universiteit Utrecht, pp1-159

Harterink M, Kim DH, Middelkoop TC, Doan TD, van Oudenaarden A, Korswagen HC., Neuroblast migration along the anteroposterior axis of C. elegans is controlled by opposing gradients of Wnts and a secreted Frizzled-related protein., Development. 2011 Jul;138(14):2915-24.

Harterink M, Port F, Lorenowicz MJ, McGough IJ, Silhankova M, Betist MC, van Weering JR, van Heesbeen RG, Middelkoop TC, Basler K, Cullen PJ, Korswagen HC., A SNX3-dependent retromer pathway mediates retrograde transport of the Wnt sorting receptor Wntless and is required for Wnt secretion., Nat Cell Biol. 2011 Jul 3;13(8):914-23.

Held N, Smits BM, Gockeln R, Schubert S, Nave H, Northrup E, Cuppen E, Hedrich HJ, Wedekind D., A mutation in Myo15 leads to Usher-like symptoms in LEW/Ztm-ci2 rats., PLoS One. 2011 Mar 29;6(3):e15669.

Homminga I, Pieters R, Langerak AW, de Rooi JJ, Stubbs A, Verstegen M, Vuerhard M, Buijs-Gladdines J, Kooi C, Klous P, van Vlierberghe P, Ferrando AA, Cayuela JM, Verhaaf B, Beverloo HB, Horstmann M, de Haas V, Wiekmeijer AS, Pike-Overzet K, Staal FJ, de, Integrated transcript and genome analyses reveal NKX2-1 and MEF2C as potential oncogenes in T cell acute lymphoblastic leukemia., Cancer Cell. 2011 Apr 12;19(4):484-97.

Huang HY, Houwing S, Kaaij LJ, Meppelink A, Redl S, Gauci S, Vos H, Draper BW, Moens CB, Burgering BM, Ladurner P, Krijgsveld J, Berezikov E, Ketting RF., Tdrd1 acts as a molecular scaffold for Piwi proteins and piRNA targets in zebrafish., EMBO J. 2011 Jul 8;30(16):3298-308.

Huch M, Clevers H., Sox9 marks adult organ progenitors., Nat Genet. 2011 Jan;43(1):9-10.

Joziasse IC, Smith KA, Chocron S, van Dinther M, Guryev V, van de Smagt JJ, Cuppen E, Ten Dijke P, Mulder BJ, Maslen CL, Reshey B, Doevendans PA, Bakkers J, ALK2 mutation in a patient with Down's syndrome and a congenital heart defect., Eur J Hum Genet. 2011 Apr;19(4):389-93.

Jung P, Sato T, Merlos-Suárez A, Barriga FM, Iglesias M, Rossell D, Gallardo MM, Blasco MA, Sancho E, Clevers H, Batlle E., Isolation and in vitro expansion of human colonic stem cells., Nat Med. 2011 Sep 4;17(10):1225-7.

Kamminga LM, Ketting RF., RNAi genes pave their own way., Genes Dev. 2011 Mar 15;25(6):529-33.

Karpanen T, Schulte-Merker S., Zebrafish provides a novel model for lymphatic vascular research., Methods Cell Biol. 2011;105:223-38.

Kasher PR, Namavar Y, van Tijn P, Fluiter K, Sizarov A, Kamermans M, Grierson AJ, Zivkovic D, Baas F., Impairment of the tRNA-splicing endonuclease subunit 54 (tsen54) gene causes neurological abnormalities and larval death in zebrafish models of pontocerebellar hypoplasia., Hum Mol Genet. 2011 Apr 15;20(8):1574-84.

Ketting RF., The Many Faces of RNAi., Dev Cell. 2011 Feb 15;20(2):148-61.

Kettleborough RN, Bruijn E, Eeden F, Cuppen E, Stemple DL., High-throughput target-selected gene inactivation in zebrafish., Methods Cell Biol. 2011;104:121-7.

Kloosterman WP, Guryev V, van Roosmalen M, Duran KJ, de Bruijn E, Bakker SC, Letteboer T, van Nesselrooij B, Hochstenbach R, Poot M, Cuppen E., Chromothripsis as a mechanism driving complex de novo structural rearrangements in the germline., Hum Mol Genet. 2011 May 15;20(10):1916-24.

Kloosterman WP, Hoogstraat M, Paling O, Tavakoli-Yaraki M, Renkens I, Vermaat JS, van Roosmalen MJ, van Lieshout S, Nijman IJ, Roessingh W, van 't Slot R, van de Belt J, Guryev V, Koudijs M, Voest E, Cuppen E., Chromothripsis is a common mechanism driving genomic rearrangements in primary and metastatic colorectal cancer., Genome Biol. 2011 Oct 19;12(10):R103.

Knopf F, Hammond C, Chekuru A, Kurth T, Hans S, Weber CW, Mahatma G, Fisher S, Brand M, Schulte-Merker S, Weidinger G., Bone regenerates via dedifferentiation of osteoblasts in the zebrafish fin., Dev Cell. 2011 May 17;20(5):713-24.

Kondylis V, Tang Y, Fuchs F, Boutros M, Rabouille C., Identification of ER proteins involved in the functional organisation of the early secretory pathway in Drosophila cells by a targeted RNAi screen., PLoS One. 2011 Feb 23;6(2):e17173.

Koo BK, Stange DE, Sato T, Karthaus W, Farin HF, Huch M, van Es JH, Clevers H., Controlled gene expression in primary Lgr5 organoid cultures., Nat Methods. 2011 Dec 4;9(1):81-3.

Korswagen HC., A case of cross-reactivity., Chem Biol. 2011 Apr 22;18(4):409-10.

Koudijs MJ, Klijn C, van der Weyden L, Kool J, Ten Hoeve J, Sie D, Prasetyanti PR, Schut E, Kas S, Whipp T, Cuppen E, Wessels L, Adams DJ, Jonkers J., High-throughput semi-quantitative analysis of insertional mutations in heterogeneous tumors., Genome Res. 2011 Dec;21(12):2181-9.

Krueger J, Liu D, Scholz K, Zimmer A, Shi Y, Klein C, Siekmann A, Schulte-Merker S, Cudmore M, Ahmed A, le Noble F., Flt1 acts as a negative regulator of tip cell formation and branching morphogenesis in the zebrafish embryo., Development. 2011 May;138(10):2111-20.

Kuales G, De Mulder K, Glashauser J, Salvenmoser W, Takashima S, Hartenstein V, Berezikov E, Salzburger W, Ladurner P., Boule-like genes regulate male and female gametogenesis in the flatworm Macrostomum lignano., Dev Biol. 2011 Sep 1;357(1):117-32.

Kuijk EW, Chuva de Sousa Lopes SM, Geijsen N, Macklon N, Roelen BA., The different shades of mammalian pluripotent stem cells., Hum Reprod Update. 2011 Mar-Apr;14(2):254-71.

Lagendijk AK, Goumans MJ, Burkhard SB, Bakkers J., MicroRNA-23 Restricts Cardiac Valve Formation by Inhibiting Has2 and Extracellular Hyaluronic Acid Production., Circ Res. 2011 Sep 2;109(6):649-57

Lagendijk AK., Valve Morphogenesis: Directing Cardiac Form and Function, Thesis, Universiteit Utrecht, pp. 1-130

Leckband DE, le Duc Q, Wang N, de Rooij J., Mechanotransduction at cadherin-mediated adhesions., Curr Opin Cell Biol. 2011 Oct;23(5):523-30.

Linsen SE, Cuppen E., Methods for small RNA preparation for digital gene expression profiling by next-generation sequencing., Methods Mol Biol. 2012;822:205-17.

Matsumaru D, Haraguchi R, Miyagawa S, Motoyama J, Nakagata N, Meijlink F, Yamada G., Genetic analysis of Hedgehog signaling in ventral body wall development and the onset of omphalocele formation., PLoS One. 2011 Jan 20;6(1):e16260.

Merlos-Suárez A, Barriga FM, Jung P, Iglesias M, Céspedes MV, Rossell D, Sevillano M, Hernando-Momblona X, da Silva-Diz V, Muñoz P, Clevers H, Sancho E, Mangues R, Batlle E., The Intestinal Stem Cell Signature Identifies Colorectal Cancer Stem Cells and Predicts Disease Relapse., Cell Stem Cell. 2011 May 6;8(5):511-24.

Mokry M, Applications of next generation sequencing in (epi)genetics, Thesis, Universteit Utrecht, pp 1-169

Mokry M, Nijman IJ, van Dijken A, Benjamins R, Heidstra R, Scheres B, Cuppen E., Identification of factors required for meristem function in Arabidopsis using a novel next generation sequencing fast forward genetics approach., BMC Genomics. 2011 May 20;12:256.

Montavon T, Soshnikova N, Mascrez B, Joye E, Thevenet L, Splinter E, de Laat W, Spitz F, Duboule D., A regulatory archipelago controls hox genes transcription in digits., Cell. 2011 Nov 23;147(5):1132-45.

Mul JD, la Fleur SE, Toonen PW, Afrasiab-Middelman A, Binnekade R, Schetters D, Verheij MM, Sears RM, Homberg JR, Schoffelmeer AN, Adan RA, DiLeone RJ, De Vries TJ, Cuppen E., Chronic loss of melanin-concentrating hormone affects motivational aspects of feeding in the rat., PLoS One. 2011 May 5;6(5):e19600.

Mul JD, Nadra K, Jagalur NB, Nijman IJ, Toonen PW, Médard JJ, Grès S, de Bruin A, Han GS, Brouwers JF, Carman GM, Saulnier-Blache JS, Meijer D, Chrast R, Cuppen E., A hypomorphic mutation in Lpin1 induces progressively improving neuropathy and lipodystrophy in the rat., J Biol Chem. 2011 Jul 29;286(30):26781-93.

Noordermeer D, de Wit E, Klous P, van de Werken H, Simonis M, Lopez-Jones M, Eussen B, de Klein A, Singer RH, de Laat W., Variegated gene expression caused by cell-specific long-range DNA interactions., Nat Cell Biol. 2011 Jun 26;13(8):944-51

Noordermeer D, Leleu M, Splinter E, Rougemont J, De Laat W, Duboule D., The dynamic architecture of Hox gene clusters., Science. 2011 Oct 14;334(6053):222-5.

Pannekoek WJ, van Dijk JJ, Chan OY, Huveneers S, Linnemann JR, Spanjaard E, Brouwer PM, van der Meer AJ, Zwartkruis FJ, Rehmann H, de Rooij J, Bos JL., Epac1 and PDZ-GEF cooperate in Rap1 mediated endothelial junction control., Cell Signal. 2011 Dec;23(12):2056-64.

Paridaen JT, Janson E, Utami KH, Pereboom TC, Essers PB, van Rooijen C, Zivkovic D, Macinnes AW., The nucleolar GTP-binding proteins Gnl2 and nucleostemin are required for retinal neurogenesis in developing zebrafish., Dev Biol. 2011 Jul 15;355(2):286-301.

Pereboom TC, van Weele LJ, Bondt A, Macinnes AW., A zebrafish model of dyskeratosis congenita reveals hematopoetic stem cell formation failure due to ribosomal protein-mediated p53 stabilization., Blood. 2011 Nov 17;118(20):5458-65.

Poell JB, van Haastert RJ, Cerisoli F, Bolijn AS, Timmer LM, Diosdado-Calvo B, Meijer GA, van Puijenbroek AA, Berezikov E, Schaapveld RQ, Cuppen E., Functional microRNA screening using a comprehensive lentiviral human microRNA expression library., BMC Genomics. 2011 Nov 3;12:546.

Runtuwene V, van Eekelen M, Overvoorde J, Rehmann H, Yntema HG, Nillesen WM, van Haeringen A, van der Burgt I, Burgering B, den Hertog J., Noonan syndrome gain-of-function mutations in NRAS cause zebrafish gastrulation defects., Dis Model Mech. 2011 May;4(3):393-9.

Ryazansky SS, Gvozdev VA, Berezikov E., Evidence for post-transcriptional regulation of clustered microRNAs in Drosophila., BMC Genomics. 2011 Jul 19;12:371.

Samuel MS, Lopez JI, McGhee EJ, Croft DR, Strachan D, Timpson P, Munro J, Schröder E, Zhou J, Brunton VG, Barker N, Clevers H, Sansom OJ, Anderson KI, Weaver VM, Olson MF., Actomyosin-Mediated Cellular Tension Drives Increased Tissue Stiffness and β-Catenin Activation to Induce Epidermal Hyperplasia and Tumor Growth., Cancer Cell. 2011 Jun 14;19(6):776-91.

Sartori da Silva, MA, Action and function of ASB proteins in compartment size regulation, Thesis, Erasmus Universiteit Rotterdam

Sato T, Stange DE, Ferrante M, Vries RG, van Es JH, van den Brink S, van Houdt WJ, Pronk A, van Gorp J, Siersema PD, Clevers H., Long-term Expansion of Epithelial Organoids From Human Colon, Adenoma, Adenocarcinoma, and Barrett's Epithelium., Gastroenterology. 2011 Nov;141(5):1762-72.

Sato T, van Es JH, Snippert HJ, Stange DE, Vries RG, van den Born M, Barker N, Shroyer NF, van de Wetering M, Clevers H., Paneth cells constitute the niche for Lgr5 stem cells in intestinal crypts., Nature. 2011 Jan 20;469(7330):415-8

Schepers AG, Vries R, van den Born M, van de Wetering M, Clevers H., Lgr5 intestinal stem cells have high telomerase activity and randomly segregate their chromosomes., EMBO J. 2011 Mar 16;30(6):1104-9.

Schulte-Merker S, Sabine A, Petrova TV., Lymphatic vascular morphogenesis in development, physiology, and disease., J Cell Biol. 2011 May 16;193(4):607-18.

Simons BD, Clevers H., Strategies for homeostatic stem cell self-renewal in adult tissues., Cell. 2011 Jun 10;145(6):851-62.

Simons BD, Clevers H., Stem cell self-renewal in intestinal crypt., Exp Cell Res. 2011 Nov 15;317(19):2719-24.

Sleigh JN, Buckingham SD, Esmaeili B, Viswanathan M, Cuppen E, Westlund BM, Sattelle DB., A novel Caenorhabditis elegans allele smn-1(cb131), mimicking a mild form of spinal muscular atrophy, provides a convenient drug screening platform highlighting new and pre-approved compounds., Hum Mol Genet. 2011 Jan 15;20(2):245-60.

Smith KA, Lagendijk AK, Courtney AD, Chen H, Paterson S, Hogan BM, Wicking C, Bakkers J., Transmembrane protein 2 (Tmem2) is required to regionally restrict atrioventricular canal boundary and endocardial cushion development., Development. 2011 Oct;138(19):4193-8.

Smith KA, Noël E, Thurlings I, Rehmann H, Chocron S, Bakkers J., Bmp and Nodal Independently Regulate lefty1 Expression to Maintain Unilateral Nodal Activity during Left-Right Axis Specification in Zebrafish., PLoS Genet. 2011 Sep;7(9):e1002289.

Snippert HJ, Clevers H., Tracking adult stem cells., EMBO Rep. 2011 Feb;12(2):113-22.

Snippert HJ, Schepers AG, Delconte G, Siersema PD, Clevers H., Slide preparation for single-cell-resolution imaging of fluorescent proteins in their three-dimensional near-native environment., Nat Protoc. 2011 Jul 28;6(8):1221-8.

Snippert HJG., Adult Stem Cells in Mice., Thesis, Universiteit Utrecht, pp 1-120

Splinter E, Keeping the genome in shape: a role for protein and RNA, Thesis, Universiteit Utrecht, pp 1-158

Splinter E, de Laat W., The complex transcription regulatory landscape of our genome: control in three dimensions., EMBO J. 2011 Sep 27.

Splinter E, de Wit E, Nora EP, Klous P, van de Werken HJ, Zhu Y, Kaaij LJ, van Ijcken W, Gribnau J, Heard E, de Laat W., The inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA., Genes Dev. 2011 Jul 1;25(13):1371-83.

Steller EJ, Ritsma L, Raats DA, Hoogwater FJ, Emmink BL, Govaert KM, Laoukili J, Borel Rinkes IH, van Rheenen J, Kranenburg O., The death receptor CD95 activates the cofilin pathway to stimulate tumour cell invasion., EMBO Rep. 2011 Sep 1;12(9):931-7.

Stringer EJ, Duluc, I, Saadi T, Davidson I, Bialecka M, Sato T, Barker N, Clevers H, Pritchard CA, Winton DJ, Wright NA, Freund JN, Deschamps J, Beck F., Cdx2 determines the fate of postnatal intestinal endoderm, Development, 21 December 2011; 139, 465-474

Sylva M, Li VS, Buffing AA, van Es JH, van den Born M, van der Velden S, Gunst Q, Koolstra JH, Moorman AF, Clevers H, van den Hoff MJ., The BMP Antagonist Follistatin-Like 1 Is Required for Skeletal and Lung Organogenesis., PLoS One. 2011;6(8):e22616. 2011 Aug 3.

Tao S, Witte M, Bryson-Richardson RJ, Currie PD, Hogan BM, Schulte-Merker S., Zebrafish prox1b Mutants Develop a Lymphatic Vasculature, and prox1b Does Not Specifically Mark Lymphatic Endothelial Cells., PLoS One. 2011;6(12):e28934.

Tauriello DVF., Mechanisms in Proximal Wnt Signalling, Thesis, Universiteit Utrecht, pp 1-147

Tena JJ, Alonso ME, de la Calle-Mustienes E, Splinter E, de Laat W, Manzanares M, Gómez-Skarmeta JL., An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation., Nat Commun. 2011;2:310.

Tolhuis B, Blom M, Kerkhoven RM, Pagie L, Teunissen H, Nieuwland M, Simonis M, de Laat W, van Lohuizen M, van Steensel B., Interactions among Polycomb Domains Are Guided by Chromosome Architecture., PLoS Genet. 2011 Mar;7(3):e1001343.

van Boxtel R, Cuppen E., Generation of genetically modified rodents using random ENU mutagenesis., Methods Mol Biol. 2011;693:295-308.

van Boxtel R, Kuiper RV, Toonen PW, van Heesch S, Hermsen R, de Bruin A, Cuppen E., Homozygous and Heterozygous p53 Knockout Rats Develop Metastasizing Sarcomas with High Frequency., Am J Pathol. 2011 Oct;179(4):1616-22.

van Boxtel R, Vroling B, Toonen P, Nijman IJ, van Roekel H, Verheul M, Baakman C, Guryev V, Vriend G, Cuppen E., Systematic generation of in vivo G protein-coupled receptor mutants in the rat., Pharmacogenomics J. 2011 Oct;11(5):326-36.

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