Publication overview
Approaches to microRNA discovery
Berezikov, E.Cuppen, E.Plasterk, R. H.Nat Genet 2006, 38
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Analogie based video editing
Yan, W. Q.Wang, J.Kankanhalli, M. S.Multimedia systems 2006, 11: 3
Nuclear pore components are involved in the transcriptional regulation of dosage compensation i Drosophila
Mendjan, S.Taipale, M.Kind, J.Gebhardt, P.Scheider, M.Vermeulen, M.Buscaino, A.Duncan...Mol.Cell. 2006, 21: 811
Feed-forward loop circuits as a side effect of genome evolution
Cordero, O. X.Hogeweg, P.Mol.Biol.Evol. 2006, 23(10): 1931
http://www.ncbi.nlm.nih.gov/pubmed/16840361
When transcriptome meets metabolome: fast cellular responses of yeast to sudden relief of glucose limitation
Kresnowati, M. T.van Winden, W. A.Almering, M. J.ten Pierick, A.Ras, C.Knijnenburg, T...Mol Syst Biol 2006, 2: 49
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
GRIS: Glycoprotein-hormone receptor information system
Van Durme, J.Horn, F.Costagliola, S.Vriend, G.Vassart, G.Mol Endocrinol 2006, 20(9): 2247
A Quest for Human and Mouse Embryonic Stem Cell-specific Proteins
van Hoof, D.Passier, R.Ward-Van Oostwaard, D.Pinkse, M. W.Heck, A. J.Mummery, C. L.Kr...Mol Cell Proteomics 2006, 5(7): 1261
Mass spectrometric identification of human prostate cancer-derived proteins in serum of xenograft-bearing mice
van den Bemd, G. J.Krijgsveld, J.Luider, T. M.van Rijswijk, A. L.Demmers, J. A.Jenste...Mol Cell Proteomics 2006
Uncleaved TFILA is a substrate for Taspase 1 and active in transcription
Zhou, H.Spicuglia, S.Hsieh, J. J.Mitsiou, D. J.Hoiby, T.Veenstra, G. J.Korsmeyer, S. ...Mol Cell Biol 2006, 26(7): 2728
A feed-forward repression mechanism anchors the Sin3/histone deacetylase and N-CoR/SMRT corepressors on chromatin
Vermeulen, M.Walter, W.Le Guezennec, X.Kim, J.Edayathumangalam, R. S.Lasonder, E.Luge...Mol Cell Biol 2006, 26(14): 5226
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Peroxisome proliferator-activated receptor subtype- and cell-type-specific activation of genomic target genes upon adenoviral transgene delivery
Nielsen, R.Grontved, L.Stunnenberg, H. G.Mandrup, S.Mol Cell Biol 2006, 26(15): 5698
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Genome-wide location of the coactivator mediator: Binding without activation and transient Cdk8 interaction on DNA
Andrau, J. C.van de Pasch, L.Lijnzaad, P.Bijma, T.Koerkamp, M. G.van de Peppel, J.Wer...Mol Cell 2006, 22(2): 179
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Dont' Say Everything, Mining and Learning with Graphs
Nijssen, S.Kok, J. N. Series, EditorMLG 2006 with ECML/PKDD 2006 2006
The predicted secretome of Lactobacillus plantarum WCFS1 sheds light on interactions with its environment
Boekhorst, J.Wels, M.Kleerebezem, M.Siezen, R. J.Microbiology 2006, 152: 3175
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Comparative analysis of proteins with a mucus-binding domain found exclusively in lactic acid bacteria
Boekhorst, J.Helmer, Q.Kleerebezem, M.Siezen, R. J.Microbiology 2006, 152: 273
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria
Deutscher, J.Francke, C.Postma, P. W.Microbiol Mol Biol Rev 2006, 70(4): 939
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Membrane systems with external control
Rozenberg, G.Cavaliere, M.Brijder, R.Lecture Notes in Computer Science 2006
A modeling approach based on p systems with bounded parallelism
Romero-Campero, F. J.Bernardini, F.Lecture Notes in Computer Science 2006
Computational comleteness of tissue p systems with conditional uniport
Bernardini, F.Verlan, S.Margensten, M.Gheorghe, M.Lecture Notes in Computer Science 2006
Tissue p systems with communication modes
Bernardini, F.Freund, R. W.Lecture Notes in Computer Science 2006
Applicability of loop recombination in ciliates using the breakpoint graph
Brijder, R.Muskulus, M.Hoogeboom, H. J.Lecture Notes in Bioinformatics 2006
Compression Picks Item Sets That Matter
van Leeuwen, M.Vreeken, J.Siebes, A.Knowledge Discovery in Databases: PKDD 2006: 585
http://www.springerlink.com/content/2513p1jq6p22527t/
Model selection and estimation in regression with grouped variables
Yuan, MingLin, YiJournal of the Royal Statistical Society Series B 2006, 68(1): 49
http://dx.doi.org/10.1111/j.1467-9868.2005.00532.x
Testing against a high-dimensional alternative
Goeman, J. J.Geer, S. A.Houwelingen, H. C.Journal of the Royal Statistical Society 2006: 477
Accretive serial modular growth of the demosponge: ultrastructural and magnetic resonance imaging of the silicious skeleton
Manz, B.Belikov, S. I.Mietchen, D.Rotenberg, M.Kaluzhnaya, O. V.Kaandorp, J. A.Reiber...Journal of Structural Biology 2006
Proteolytic processing of the Equine arteritis virus replicase polyprotein pp1a: importance of the major and minor processingpathways and internal cleavage of non-structural protein 7
van Aken, D.Zevenhoven-Dobbe, J. C.Gorbalenya, A. E.Snijder, E. J.J.Gen.Virol. 2006, 87: 3473
Maximum likelihood Scaling (MALS)
Hoefsloot, H. C. J.Verouden, M. P. H.Westerhuis, J. A.Smilde, A. K.J.Chemometrics 2006
Visual search near threshold: Some features are more equal than others
Hannus, A.van den Berg, R.Bekkering, H.Roerdink, J. B.Cornelissen, F. W.J Vis 2006, 6(4): 523
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Mutagenesis analysis of the nsp4 main proteinase reveals determinants of arterivirus replicase polyprotein autoprocessing
van Aken, D.Snijder, E. J.Gorbalenya, A. E.J Virol 2006, 80(7): 3428
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Evidence for functional protein interactions required for poliovirus RNA replication
Teterina, N. L.Levenson, E.Rinaudo, M. S.Egger, D.Bienz, K.Gorbalenya, A. E.Ehrenfeld...J Virol 2006, 80(11): 5327
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Site-directed mutagenesis of the Nidovirus replicative endoribonuclease NendoU exerts pleiotropic effects on the arterivirus life cycle
Posthuma, C. C.Nedialkova, D. D.Zevenhoven-Dobbe, J. C.Blokhuis, J. H.Gorbalenya, A. ...J Virol 2006, 80(4): 1653
Discussion of 'Bayesian palaeoclimate reconstruction' by J. Haslett et al
ter Braak, C. J. F.J Roy Stat 2006(169): 431
Analysis of the cGMP/cAMP interactome using a chemical proteomics approach in mammalian heart tissue validates sphingosine kinase type 1-interacting protein as a genuine and highly abundant AKAP
Scholten, A.Poh, M. K.van Veen, T. A.van Breukelen, B.Vos, M. A.Heck, A. J.J Proteome Res 2006, 5(6): 1435
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
In-gel isoelectric focusing of peptides as a tool for improved protein identification
Krijgsveld, J.Gauci, S.Dormeyer, W.Heck, A. J.J Proteome Res 2006, 5(7): 1721
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Fast empirical pKa prediction by Ewald summation
Krieger, E.Nielsen, J. E.Spronk, C. A.Vriend, G.J Mol Graph Model 2006, 25(4): 481
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
QCRNA 1.0: A database of quantum calculations for RNA catalysis
Giese, T. J.Gregersen, B. A.Liu, Y.Nam, K.Mayaan, E.Moser, A.Range, K.Faza, O. N.Lope...J Mol Graph Model 2006, 25(4): 423
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Predicting disease genes using protein-protein interactions
Oti, M.Snel, B.Huynen, M. A.Brunner, H. G.J Med Genet 2006, 43: 691
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Longitudinal Assessment of Alzheimer's Beta-Amyloid Plaque Development in Transgenic Mice Monitored by in Vivo Magnetic Resonance Microimaging
Braakman, N.Matysik, J.van Duinen, S. G.Verbeek, F.Schliebs, R.de Groot, H. J.Alia, A...J Magn Reson Imaging 2006, 24(3): 530
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Identification of protease and ADP-ribose 1''-monophosphatase activities associated with transmissible gastroenteritis virus non-structural protein 3
Putics, A.Gorbalenya, A. E.Ziebuhr, J.J Gen Virol 2006, 87: 651
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Analysis of human serum by liquid chromatography-mass spectrometry: improved sample preparation and data analysis
Govorukhina, N. I.Reijmers, T. H.Nyangoma, S. O.van der Zee, A. G.Jansen, R. C.Bischo...J Chromatogr A. 2006, 1120: 142
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Substructure Mining Using Elaborate Chemical Representation
Nijssen, S.Kok, J.Back, T.Ijzerman, A. P.J Chem Inf Model 2006, 46(2): 597
Mining a chemical database for fragment co-occurrence: discovery of "chemical cliches"
Lameijer, E. W.Kok, J. N.Back, T.Ijzerman, A. P.J Chem Inf Model 2006, 46(2): 553
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Substructures mining using elaborate chemical representation
Kazius, J.Nijssen, S.Kok, J.Back, T.Ijzerman, A. P.J Chem Inf Model 2006, 46(2): 597
The molecule evoluator. An interactive evolutionary algorithm for the design of drug-like molecules
Lameijer, E. W.Kok, J. N.Back, T.Ijzerman, A. P.J Chem Inf and Mod 2006, 46: 545
The novel gene asb11: a regulator of the size of the neural progenitor compartment
Diks, S. H.Bink, R. J.van de Water, S.Joore, J.van Rooijen, C.verbeek, F. J.den Herto...J Cell Biol 2006, 174(4): 581
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&d...
Negative constraints underlie the ErbB specificity of epidermal growth factor-like ligands
van der Woning, S. P.van, Rotterdam W.Nabuurs, S. B.Venselaar, H.Jacobs-Oomen, S.Wing...J Biol Chem 2006, 281(52): 40033
http://www.ncbi.nlm.nih.gov/pubmed/17032651
A genome-scale model of Lactobacillus plantarum: an essential tool for integration of functional genomics data and for exploring metabolic capacities
Teusink, B.Wiersma, A.Francke, C.Molenaar, D.Siezen, R. J.Smid, E. J.J Biol Chem 2006, 281: 40041
Evaluation of a gene network extraction method on synthetic data
de Jong, E. D.Siebes, A.ISNB '06 2006
http://people.cs.uu.nl/dejong/publications/isnb.pdf
Estimating spatial patterns of biomass and nitrogen status grasslands through imaging spectrometry
Clevers, J. G. P. W.Van der Heijden, G. W. A. M.Verzakov, S.Schaepman, M.International archives of photogrammetry, remote sensing and spatial information sciences, ISPRS WG VII/1 2006: 56
Mixtures of Monotone Networks for Prediction
Velikova, M.Daniels, H.Feelders, A.Intern J of Computational Intelligence 2006, 3(3): 204