TY - JOUR AU - Sheu, S. Y. AU - Schlag, E. W. AU - Selzle, H. L. AU - Yang, D. Y. PY - 2008 DA - 2008// TI - Molecular Dynamics of Hydrogen Bonds in Protein-D2O: The Solvent Isotope Effect JO - J Phys Chem A VL - 112 UR - https://doi.org/10.1021/jp0771668 DO - 10.1021/jp0771668 ID - Sheu2008 ER - TY - JOUR AU - Kalkhof, S. AU - Ihling, C. AU - Mechtler, K. AU - Sinz, A. PY - 2004 DA - 2004// TI - Chemical Cross-Linking and High-Performance Fourier Transform Ion Cyclotron Resonance Mass Spectrometry for Protein Interaction Analysis: Application to a Calmodulin/Target Peptide Complex JO - Analytical Chemistry VL - 77 UR - https://doi.org/10.1021/ac0487294 DO - 10.1021/ac0487294 ID - Kalkhof2004 ER - TY - JOUR AU - Fancy, D. A. AU - Kodadek, T. PY - 1999 DA - 1999// TI - Chemistry for the analysis of proteinprotein interactions: Rapid and efficient cross-linking triggered by long wavelength light JO - Proc Natl Acad Sci USA VL - 96 UR - https://doi.org/10.1073/pnas.96.11.6020 DO - 10.1073/pnas.96.11.6020 ID - Fancy1999 ER - TY - JOUR AU - Goshe, M. AU - Chen, Y. AU - Anderson, V. PY - 2000 DA - 2000// TI - Identification of the Sites of Hydroxyl Radical Reaction with Peptides by Hydrogen/Deuterium Exchange: Pr evalence of Reactions with the Side Chains JO - Biochemistry VL - 39 UR - https://doi.org/10.1021/bi991569j DO - 10.1021/bi991569j ID - Goshe2000 ER - TY - JOUR AU - Holmberg, L. AU - Noller, H. F. PY - 1999 DA - 1999// TI - Mapping the ribosomal RNA neighborhood of protein L11 by directed hydroxyl radical probing JO - J Mol Biol VL - 289 UR - https://doi.org/10.1006/jmbi.1999.2706 DO - 10.1006/jmbi.1999.2706 ID - Holmberg1999 ER - TY - JOUR AU - Sharp, J. AU - Becker, J. AU - Hettich, R. PY - 2004 DA - 2004// TI - Analysis of Protein Solvent Accessible Surfaces by Photochemical Oxidation and Mass Spectrometry JO - Analytical Chemistry VL - 76 UR - https://doi.org/10.1021/ac0302004 DO - 10.1021/ac0302004 ID - Sharp2004 ER - TY - JOUR AU - Zuiderweg, E. PY - 2002 DA - 2002// TI - Mapping Protein-Protein Interactions in Solution by NMR Spectroscopy JO - Biochemistry VL - 41 UR - https://doi.org/10.1021/bi011870b DO - 10.1021/bi011870b ID - Zuiderweg2002 ER - TY - JOUR AU - Leite, J. AU - Cascio, M. PY - 2002 DA - 2002// TI - Probing the Topology of the Glycine Receptor by Chemical Modification Coupled to Mass Spectrometry JO - Biochemistry VL - 41 UR - https://doi.org/10.1021/bi015895m DO - 10.1021/bi015895m ID - Leite2002 ER - TY - JOUR AU - Kang, S. AU - Hawkridge, A. AU - Johnson, K. AU - Muddiman, D. AU - Prevelige, P. PY - 2006 DA - 2006// TI - Identification of Subunit-Subunit Interactions in Bacteriophage P22 Procapsids by Chemical Cross-linking and Mass Spectrometry JO - Journal of Proteome Research VL - 5 UR - https://doi.org/10.1021/pr050356f DO - 10.1021/pr050356f ID - Kang2006 ER - TY - JOUR AU - Lam, T. AU - Lanman, J. AU - Emmett, M. AU - Hendrickson, C. AU - Prevelige, P. PY - 2002 DA - 2002// TI - Mapping of protein:protein contact surfaces by hydrogen/deuterium exchange, followed by on-line high-performance liquid chromatography-electrospray ionization fourier-transform ion-cyclotron-resonance mass analysis JO - Journal of Chromatography A VL - 982 UR - https://doi.org/10.1016/S0021-9673(02)01357-2 DO - 10.1016/S0021-9673(02)01357-2 ID - Lam2002 ER - TY - JOUR AU - Zhang, Z. AU - Smith, D. L. PY - 1993 DA - 1993// TI - Determination of amide hydrogen exchange by mass spectrometry: a new tool for protein structure elucidation JO - Protein Sci VL - 2 UR - https://doi.org/10.1002/pro.5560020404 DO - 10.1002/pro.5560020404 ID - Zhang1993 ER - TY - BOOK AU - Ahuja, R. K. AU - Magnanti, T. L. AU - Orlin, J. B. PY - 1993 DA - 1993// TI - Network flows: theory, algorithms, and applications PB - Prentice Hall Inc. CY - Englewood Cliffs, NJ ID - Ahuja1993 ER - TY - CHAP AU - Althaus, E. AU - Canzar, S. AU - Elbassioni, K. AU - Karrenbauer, A. AU - Mestre, J. PY - 2008 DA - 2008// TI - Approximating the Interval Constrained Coloring Problem BT - Proceedings of the 11th Scandinavian Workshop on Algorithm Theory PB - Gothenburg CY - Sweden ID - Althaus2008 ER - TY - CHAP AU - Althaus, E. AU - Canzar, S. AU - Ehrler, C. AU - Emmett, M. R. AU - Karrenbauer, A. AU - Marshall, A. G. AU - Meyer-Bäse, A. AU - Tipton, J. AU - Zhang, H. PY - 2009 DA - 2009// TI - Discrete Fitting of Hydrogen-Deuterium-exchange-data of overlapping fragments BT - The 2009 International Conference on Bioinformatics & Computational Biology ID - Althaus2009 ER - TY - JOUR AU - Zhang, Z. AU - Guan, S. AU - Marshall, A. G. PY - 1997 DA - 1997// TI - Enhancement of the Effective Resolution of Mass Spectra of High Mass Biomolecules by Maximum Entropy-Based Deconvolution to Eliminate the Isotopic Natural Abundance Distribution JO - Journal of American Society of Mass Spectrometry VL - 8 UR - https://doi.org/10.1016/S1044-0305(97)82982-0 DO - 10.1016/S1044-0305(97)82982-0 ID - Zhang1997 ER - TY - JOUR AU - Milne, J. S. AU - Mayne, L. AU - Roder, H. AU - Wand, A. J. AU - Englander, S. W. PY - 1998 DA - 1998// TI - Determinants of protein hydrogen exchange studied in equine cytochrome c JO - Protein Sci VL - 7 UR - https://doi.org/10.1002/pro.5560070323 DO - 10.1002/pro.5560070323 ID - Milne1998 ER - TY - STD TI - The PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC[http://www.pymol.org] UR - http://www.pymol.org ID - ref17 ER - TY - STD TI - SCIL (Symbolic Constraints for Integer Linear Programming)2004. [http://www.mpi-sb.mpg.de/SCIL] UR - http://www.mpi-sb.mpg.de/SCIL ID - ref18 ER - TY - BOOK AU - Mehlhorn, K. AU - Näher, S. PY - 1999 DA - 1999// TI - The LEDA Platform of Combinatorial and Geometric Computing PB - Cambridge University Press CY - Cambridge ID - Mehlhorn1999 ER - TY - BOOK PY - 2009 DA - 2009// TI - Solving Constraint Integer Programs ID - ref20 ER - TY - STD TI - ILOG-CPLEX 10.02007. [http://www.ilog.com] UR - http://www.ilog.com ID - ref21 ER - TY - STD TI - SoPlex (Sequential object-oriented simplex class library)2004. [http://www.zib.de/Optimization/Software/Soplex] UR - http://www.zib.de/Optimization/Software/Soplex ID - ref22 ER - TY - BOOK AU - Wolsey, L. A. PY - 1998 DA - 1998// TI - Integer programming PB - Sons CY - Wiley-interscience series in discrete mathematics and optimization, New York ID - Wolsey1998 ER - TY - JOUR AU - Held, M. AU - Karp, R. PY - 1971 DA - 1971// TI - The traveling salesman problem and minimum spanning trees: Part II JO - Mathematical Programming VL - 1 UR - https://doi.org/10.1007/BF01584070 DO - 10.1007/BF01584070 ID - Held1971 ER - TY - STD TI - Kazazic S, Zhang HM, Schaub TM, Emmett MR, Hendrickson CL, Blakney GT, Marshall AG: Automated Data Reduction for Hydrogen/Deuterium Exchange Experiments, Enabled by High-Resolution Fourier Transform Ion Cyclotron Resonance Mass Spectrometry. Journal of American Society of Mass Spectrometry 2010, (21):550–558. 10.1016/j.jasms.2009.12.016 ID - ref25 ER - TY - JOUR AU - Molday, R. S. AU - Englander, S. W. AU - Kallen, R. G. PY - 1972 DA - 1972// TI - Primary structure effects on peptide group hydrogen exchange JO - Biochemistry VL - 11 UR - https://doi.org/10.1021/bi00752a003 DO - 10.1021/bi00752a003 ID - Molday1972 ER - TY - JOUR AU - Bai, Y. AU - Milne, J. S. AU - Mayne, L. AU - Englander, S. W. PY - 1993 DA - 1993// TI - Primary structure effects on peptide group hydrogen exchange JO - Proteins VL - 17 UR - https://doi.org/10.1002/prot.340170110 DO - 10.1002/prot.340170110 ID - Bai1993 ER - TY - JOUR AU - Emmett, M. R. AU - Kazazic, S. AU - Marshall, A. G. AU - Chen, W. AU - Shi, S. D. H. AU - Bolanos, B. AU - Greig, M. J. PY - 2006 DA - 2006// TI - Supercritical Fluid Chromatography Reduction of Hydrogen/Deuterium Back Exchange in Solution-Phase Hydrogen/Deuterium Exchange with Mass Spectrometric Analysis JO - Analytical Chemistry VL - 78 UR - https://doi.org/10.1021/ac060693n DO - 10.1021/ac060693n ID - Emmett2006 ER - TY - JOUR AU - Zhang, H. M. AU - Bou-Assaf, G. M. AU - Emmett, M. R. AU - Marshall, A. G. PY - 2009 DA - 2009// TI - Fast Reversed-Phase Liquid Chromatography to Reduce Back Exchange and Increase Throughput in H/D Exchange Monitored by FT-ICR Mass Spectrometry JO - Journal of the American Society for Mass Spectrometry VL - 20 UR - https://doi.org/10.1016/j.jasms.2008.11.010 DO - 10.1016/j.jasms.2008.11.010 ID - Zhang2009 ER - TY - JOUR AU - Zhang, H. M. AU - Kazazic, S. AU - Schaub, T. M. AU - Tipton, J. D. AU - Emmett, M. R. AU - Marshall, A. G. PY - 2008 DA - 2008// TI - Enhanced Digestion Efficiency, Peptide Ionization Efficiency, and Sequence Resolution for Protein Hydrogen/Deuterium Exchange Monitored by Fourier Transform Ion Cyclotron Resonance Mass Spectrometry JO - Anal Chem VL - 80 UR - https://doi.org/10.1021/ac801417d DO - 10.1021/ac801417d ID - Zhang2008 ER -