HITS Publications

2013

• Büchel F, Rodriguez N, Swainston N, Wrzodek C, Czauderna T, Keller R, Mittag F, Schubert M, Glont M, Golebiewski M, Iersel Mv, Keating S, Rall M, Wybrow M, Hermjakob H, Hucka M, Kell DB, Müller W, Mendes P, Zell A, Chaouiya C, Saez-Rodriguez J, Schreiber F, Laibe C, Dräger A, Novère NL (2013). Path2Models: large-scale generation of computational models from biochemical pathway maps, BMC Syst Biol 7(1),116 1351
• Gombos L, Neuner A, Berynskyy M, Fava LL, Wade RC, Sachse C, Schiebel E (2013). GTP regulates the microtubule nucleation activity of γ-tubulin, Nat Cell Biol 15(11):1317-1327 573
• Wittig U, Rey M, Kania R, Bittkowski M, Shi L, Golebiewski M, Weidemann A, Muller W, Rojas I (2013). Challenges for an enzymatic reaction kinetics database., FEBS J. 2014 Jan;281(2):572-82. doi: 10.1111/febs.12562. Epub 2013 Oct 25. 11
• Gryn’ova G, Coote ML (2013). Origin and Scope of Long-Range Stabilizing Interactions and Associated SOMO–HOMO Conversion in Distonic Radical Anions, J. Am. Chem. Soc. 135(41):15392-15403 514
• Veith N, Feldman-Salit A, Cojocaru V, Henrich S, Kummer U, Wade RC (2013). Organism-Adapted Specificity of the Allosteric Regulation of Pyruvate Kinase in Lactic Acid Bacteria, PLoS Comput Biol 9(7):e1003159 575
• Feldman-Salit A, Hering S, Messiha HL, Veith N, Cojocaru V, Sieg A, Westerhoff HV, Kreikemeyer B, Wade RC, Fiedler T (2013). Regulation of the Activity of Lactate Dehydrogenases from Four Lactic Acid Bacteria, J. Biol. Chem. 288(29):21295-21306 576
• Mereghetti P, Wade RC (2013). Brownian dynamics simulation of protein diffusion in crowded environments, AIP Conference Proceedings,pp.511-516,American Institute of Physics 579
• Sandikci A, Gloge F, Martinez M, Mayer MP, Wade R, Bukau B, Kramer G (2013). Dynamic enzyme docking to the ribosome coordinates N-terminal processing with polypeptide folding, Nat Struct Mol Biol 20(7):843-850 574
• Kramer O, Gieseke F, Polsterer KL (2013). Learning morphological maps of galaxies with unsupervised regression, Expert Systems with Applications 40(8):2841-2844 449
• Gryn'ova G, Marshall DL, Blanksby SJ, Coote ML (2013). Switching Radical Stability by pH-Induced Orbital Conversion, Nature Chem 5(6):474-481 516
• Kokh DB, Richter S, Henrich S, Czodrowski P, Rippmann F, Wade RC (2013). TRAPP: A Tool for Analysis of Transient Binding Pockets in Proteins, J. Chem. Inf. Model. 53(5):1235-1252 577
• Shi L, Jong L, Wittig U, Lucarelli P, Stepath M, Mueller S, D'Alessandro LA, Klingmuller U, Muller W (2013). Excemplify: a flexible template based solution, parsing and managing data in spreadsheets for experimentalists., J Integr Bioinform. 2013 Apr 3;10(2):220. doi: 10.2390/biecoll-jib-2013-220. 26
• Balbo J, Mereghetti P, Herten D, Wade R (2013). The Shape of Protein Crowders is a Major Determinant of Protein Diffusion, Biophysical Journal 104(7):1576-1584 578
• Garg D, Beribisky AV, Ponterini G, Ligabue A, Marverti G, Martello A, Costi MP, Sattler M, Wade RC (2013). Translational repression of thymidylate synthase by targeting its mRNA, Nucleic Acids Research 41(7):4159-4170 581
• Fuller JC, Khoueiry P, Dinkel H, Forslund K, Stamatakis A, Barry J, Budd A, Soldatos TG, Linssen K, Rajput AM (2013). Biggest challenges in bioinformatics, EMBO Rep 14(4):302-304 739
• Ferrari S, Ingrami M, Soragni F, Wade RC, Costi MP (2013). Ligand-based discovery of N-(1,3-dioxo-1H,3H-benzo[de]isochromen-5-yl)-carboxamide and sulfonamide derivatives as thymidylate synthase A inhibitors, Bioorganic & Medicinal Chemistry Letters 23(3):663-668 583
• Heinermann J, Kramer O, Polsterer KL, Gieseke F (2013). On GPU-Based Nearest Neighbor Queries for Large-Scale Photometric Catalogs in Astronomy, In KI 2013: Advances in Artificial Intelligence, pp. 86–97, Springer Berlin Heidelberg, Berlin, Heidelberg 448
• Polsterer KL, Zinn P, Gieseke F (2013). Finding new high-redshift quasars by asking the neighbours, Monthly Notices of the Royal Astronomical Society 428(1):226-235 450
• Gryn'ova G, Lin CY, Coote ML (2013). Which Side-Reactions Compromise Nitroxide Mediated Polymerization?, Polym. Chem. 4(13):3744 515
• Gryn'ova G, Guliashvili T, Matyjaszewski K, Coote ML (2013). Computational Evaluation of the Sulfonyl Radical as a Universal Leaving Group for RAFT Polymerisation, Aust. J. Chem. 66(3):308 517
• Yu X, Cojocaru V, Wade RC (2013). Conformational diversity and ligand tunnels of mammalian cytochrome P450s, Biotechnology and Applied Biochemistry 60(1):134-145 580
• Berynskyy M, Wade RC (2013). Treating Conformational Flexibility in Protein-Protein Docking, CPC 3(1):27-35 582
• Banerjee P (2013). An Algorithmic Approach to Peptidomimetics (Master's Thesis), Masters Programme in Life Science Informatics, Bonn-Aachen International Center for Information Technology (B-IT), University of Bonn 852
• Costi MP, Luciani R, Nerini E, D. G, Ferrari S, Venturelli A, Lazzari S, Wade RC, Henrich S, Motiejunas D (2013). Uso di inhibitori della Pteridina Reduttasi per la prevenzione e/o il trattamento di infezioni parassitarie, Italian Patent Nr. 1403584, Date of Patent: 31.10.2013, Filed : 25.11.2010 1034
• Schefzik R, Thorarinsdottir TL, Gneiting T (2013). Uncertainty quantification in complex simulation models using ensemble copula coupling, Statistical Science, 28(4):616–640 1398
• Sloughter JM, Gneiting T, Raftery AE (2013). Probabilistic wind vector forecasting using ensembles and Bayesian model averaging, Monthly Weather Review, 141(6):2107–2119 1400
• Gneiting T, Ranjan R (2013). Combining predictive distributions, Electronic Journal of Statistics, 7:1747–1782 1401
• Thorarinsdottir TL, Gneiting T, Gissibl N (2013). Using proper divergence functions to evaluate climate models, SIAM/ASA Journal on Uncertainty Quantification,1(1):522–534 1402
• Grant K, Gneiting T (2013). Consistent scoring functions for quantiles, In From Probability to Statistics and Back: High-Dimensional Models and Processes — A Festschrift in Honor of Jon A. Wellner, Eds: Banerjee M, Bunea F, Huang J, Koltchinskii V, Maathuis MH, Institute of Mathematical Statistics, pp. 163–173 1403
• Gneiting T (2013). Strictly and non-strictly positive definite functions on spheres, Bernoulli,19(4):1327–1349 1412
• Stühmer J, Schroder P, Cremers D (2013). Tree shape priors with connectivity constraints using convex relaxation on general graphs, In Proceedings of the IEEE International conference on Computer Vision, pp. 2336–2343 1523