Publications in international journals 2003
  • Horn F, Bettler E, Oliveira L, Campagne F, Cohen FE, Vriend G.
    GPCRDB information system for G protein-coupled receptors.
    Nucleic Acids Res, Jan 1;31(1):294-297., 2003 , PDF


  • Bettler E, Krause R, Horn F, Vriend G.
    NRSAS: Nuclear Receptor Structure Analysis Servers.
    Nucleic Acids Res, Jul 1;31(13):3400-3403., 2003 , PDF


  • Campagne F, Bettler E, Vriend G, Weinstein H.
    Batch mode generation of residue-based diagrams of proteins.
    Bioinformatics , Sep 22;19(14):1854-1855., 2003 , PDF


  • Kleerebezem M, Boekhorst J, van Kranenburg R, Molenaar D, Kuipers OP, Leer R, Tarchini R, Peters SA, Sandbrink HM, Fiers MW, Stiekema W, Lankhorst RM, Bron PA, Hoffer SM, Groot MN, Kerkhoven R, de Vries M, Ursing B, de Vos WM, Siezen RJ.
    Complete genome sequence of Lactobacillus plantarum WCFS1.
    Proc Natl Acad Sci USA , Feb 18;100(4):1990-1995., 2003 , PDF


  • Borkent H, Smith P.
    Nieuwe Spectroscopie-webmodule.
    NVOX, Nov;9:414-415., 2003 , PDF


  • Borkent H, van Rooij J, Stueker O, Brunberg I, Fels G.
    Mol4D: A Web-Based Computational Chemistry Interface for Educational Purposes.
    J Chem Educ, 80(5):582., 2003 , PDF


  • Stueker O, Brunberg I, Fels G, Borkent H, van Rooij J.
    Web-Based Interactive Animation of Organic Reactions.
    J Chem Educ, 80(5):583., 2003 , PDF


  • Go SL, Maugeri A, Mulder JJ, van Driel MA, Cremers FP, Hoyng CB.
    Autosomal Dominant Rhegmatogenous Retinal Detachment Associated with an Arg453Ter Mutation in the COL2A1 Gene.
    Invest Ophthalmol Vis Sci, Sep;44(9):4035-4043., 2003 , PDF


  • van den Hurk JA, van de Pol DJ, Wissinger B, van Driel MA, Hoefsloot LH, de Wijs IJ, van den Born LI, Heckenlively JR, Brunner HG, Zrenner E, Ropers HH, Cremers FP.
    Novel types of mutation in the choroideremia(CHM) gene: a full-length L1 insertion and an intronic mutation activating a cryptic exon.
    Hum Genet, Aug;113(3):268-275., 2003 , PDF


  • van Driel MA, Cuelenaere K, Kemmeren PPCW, Leunissen JAM, Brunner HG .
    A new web-based data mining tool for the identification of candidate genes for human genetic disorders.
    Eur. J. Human Genet, Jan;11(1):57-63., 2003 , PDF


  • Dutilh BE, de Boer RJ.
    Decline in excision circles requires homeostatic renewal or homeostatic death of naive T cells.
    J Theor Biol , Oct 7;224(3):351-358., 2003 , PDF


  • Van Durme JJ, Bettler E, Folkertsma S, Horn F, Vriend G.
    NRMD: Nuclear Receptor Mutation Database.
    Nucleic Acids Res, Jan 1;31(1):331-333., 2003 , PDF


  • Gabaldon T, Huynen MA.
    Reconstruction of the proto-mitochondrial metabolism.
    Science, Aug 1;301(5633):609., 2003 , PDF


  • Ettema TJ, Huynen MA, de Vos WM, van der Oost J.
    TRASH: a novel metal-binding domain predicted to be involved in heavy-metal sensing, trafficking and resistance.
    Trends Biochem Sci, Apr;28(4):170-173., 2003 , PDF


  • Huynen MA, Snel B.
    Exploiting the variations in the genomic associations of genes to predict pathways and reconstruct their evolution.
    Frontiers in Computational Genomics, Caister Academic Press:145-166., 2003


  • Huynen MA, Snel B, von Mering C, Bork P.
    Function prediction and protein networks.
    Curr Opin Cell Biol, Apr;15(2):191-198., 2003 , PDF


  • Krieger E, Nabuurs SB, Vriend G.
    Homology Modeling.
    Methods Biochem. Anal, 44:509-523., 2003 , PDF


  • van Wijk E, Krieger E, Kemperman MH, De Leenheer EM, Huygen PL, Cremers CW, Cremers FP, Kremer H.
    A mutation in the gamma actin 1 (ACTG1) gene causes autosomal dominant hearing loss (DFNA20/26).
    J Med Genet, Dec;40(12):879-884., 2003 , PDF


  • Boteva R, Koek A, Visser NV, Visser AJ, Krieger E, Zlateva T, Veenhuis M, van der Klei I.
    Fluorescence analysis of the Hansenula polymorpha peroxisomal targeting signal-1 receptor, Pex5p.
    Eur J Biochem, Nov;270(21):4332-4338., 2003 , PDF


  • Bonifati V, Rizzu P, Squitieri F, Krieger E, Vanacore N, van Swieten JC, Brice A, van Duijn CM, Oostra B, Meco G, Heutink P.
    DJ-1( PARK7), a novel gene for autosomal recessive, early onset parkinsonism.
    Neurol Sci, Oct;24(3):159-160., 2003 , PDF


  • van Swieten JC, Brusse E, de Graaf BM, Krieger E, van de Graaf R, de Koning I, Maat-Kievit A, Leegwater P, Dooijes D, Oostra BA, Heutink P.
    A mutation in the fibroblast growth factor 14 gene is associated with autosomal dominant cerebellar ataxia.
    Am J Hum Genet, Apr;72(4):1078., 2003 , PDF


  • Bonifati V, Rizzu P, van Baren MJ, Schaap O, Breedveld GJ, Krieger E, Dekker MC, Squitieri F, Ibanez P, Joosse M, van Dongen JW, Vanacore N, van Swieten JC,Brice A, Meco G, van Duijn CM, Oostra BA, Heutink P.
    Mutations in the DJ-1 gene associated with autosomal recessive early-onset parkinsonism.
    Science, Jan 10;299(5604):256-259., 2003 , PDF


  • Nabuurs SB, Krieger E, Spronk CAEM, Hooft RWW, Vriend G.
    Protein Structures: What good is beauty if it cannot be seen?
    Computational Medicinal Chemistry and Drug Discovery, Marcel Dekker Inc:387-402., 2003


  • Nabuurs SB, Spronk CA, Krieger E, Maassen H, Vriend G, Vuister GW.
    Quantitative evaluation of experimental NMR restraints.
    J Am Chem Soc, Oct 1;125(39):12026-12034., 2003 , PDF


  • Kesmir C, Van Noort V, De Boer RJ, Hogeweg P.
    Bioinformatic analysis of functional differences between the immunoproteasome and the constitutive proteasome.
    Immunogenetics, Oct;55(7):437-449., 2003 , PDF


  • van Noort V, Snel B, Huynen MA.
    Predicting gene function by conserved co-expression.
    Trends in Genetic , May;19(5):238-242., 2003 , PDF


  • van Noort V, Worning P, Ussery DW, Rosche WA, Sinden RR.
    Strand misalingments lead to quasipalindrome correction.
    Trends in Genetics , Jul;19(7):365-369., 2003 , PDF


  • de Brouwer AP, Pennings RJ, Roeters M, Van Hauwe P, Astuto LM, Hoefsloot LH, Huygen PL, van den Helm B, Deutman AF, Bork JM, Kimberling WJ, Cremers FP, Cremers CW, Kremer H.
    Mutations in the calcium-binding motifs of CDH23 and the 35delG mutation in GJB2 cause hearing loss in one family.
    Human Genetics, Feb;112(2):156-163., 2003 , PDF


  • Ventura M, Canchaya C, Kleerebezem M, de Vos WM, Siezen RJ, Brüssow H.
    The prophage sequences of Lactobacillus plantarum strain WCFS1.
    Virology , Nov 25;316(2):245-255., 2003 , PDF


  • Morett E, Korbel JO, Rajan E, Saab-Rincon G, Olvera L, Olvera M, Schmidt S, Snel B, Bork P.
    Systematic discovery of analogous enzymes in thiamin biosynthesis.
    Nat. Biotechnol, Jul;21(7):790-795., 2003 , PDF


  • Linge JP, Williams MA, Spronk CAEM, Bonvin AMJJ, Nilges M.
    Refinement of protein structures in explicit solvent.
    Proteins, Feb 15;50(3):496-506., 2003 , PDF


  • Spronk CA, Nabuurs SB, Bonvin AM, Krieger E, Vuister GW, Vriend G.
    The precision of NMR structure ensembles revisited.
    Journal of Biomolecular NMR, Mar;25(3):225-234., 2003 , PDF


  • Radenovic N, van Enckevort W, Verwer P, Vlieg E.
    Growth and characteristics of the {111} NaCl crystal surface grown from solution.
    Surface Science, 523:307-315., 2003 , PDF


  • Travaille AM, Kaptijn L, Verwer P, Hulsken B, Elemans JA, Nolte RJ, van Kempen H.
    Highly Oriented Self-Assembled Monolayers as Templates for Epitaxial Calcite Growth.
    J Am Chem Soc, Sep 24;125(38):11571-11577., 2003 , PDF


  • Oliveira L, Paiva PB, Paiva AC, Vriend G.
    Identification of functionally conserved residues with the use of entropy-variability plots.
    Proteins, Sep 1;52(4):544-552., 2003 , PDF


  • Oliveira L, Paiva PB, Paiva AC, Vriend G.
    Sequence analysis reveals how G protein-coupled receptors transduce the signal to the G protein.
    Proteins, Sep 1;52(4):553-560., 2003 , PDF


  • Gaseidnes S, Synstad B, Jia X, Kjellesvik H, Vriend G, Eijsink VG.
    Stabilization of a chitinase from Serratia marcescens by Gly-->Ala and Xxx-->Pro mutations.
    Protein Eng, Nov;16(11):841-846., 2003 , PDF


  • van den Burg HA, Spronk CA, Boeren S, Kennedy M, Vissers H, Vuister GW, de Wit PJ, Vervoort J.
    The interaction between the chitin-binding domain of the AVR4 elicitor of Cladosporium fulvum and chitin requires three occupied binding subsites.
    Journal of Biological Chemistry, Apr 16;279(16):16786-16796, 2003 , PDF