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Computational Methods for Understanding Riboswitches

Aus der Reihe Methods in Enzymology
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Beschreibung

Produktdetails

Einband

Gebundene Ausgabe

Erscheinungsdatum

19.02.2015

Herausgeber

Shi-Jie Chen + weitere

Verlag

Elsevier Science & Technology

Seitenzahl

450

Maße (L/B/H)

22,9/15,2/2,9 cm

Gewicht

829 g

Sprache

Englisch

ISBN

978-0-12-801429-5

Beschreibung

Rezension

Praise for the Series:
"Should be on the shelves of all libraries in the world as a whole collection." --Chemistry in Industry
"The work most often consulted in the lab." --Enzymologia
"The Methods in Enzymology series represents the gold-standard." --Neuroscience

Portrait

Shi-Jie Chen is Professor of the Department of Physics Astronomy and Department of Biochemistry and is core faculty member in the Informatics Institute at the University of Missouri-Columbia. Dr. Chen received his Ph.D. in Physics from the University of California, San Diego in 1994. He was a postdoctoral researcher at the University of California, San Francisco in 1994-9 and began his faculty appointment at the University of Missouri-Columbia in 1999. Chen has served the scientific community by his participation on multiple NIH review panels and site visit reviewer teams. He served as Associate Editor of the PLoS Computational Biology. His laboratory developed Vfold and TBI, open source and freely available web servers and software for the computational predictions of RNA structure, folding thermodynamics, and ion effects. Dr. Chen was elected to the fellow of American Physical Society in 2012.

Produktdetails

Einband

Gebundene Ausgabe

Erscheinungsdatum

19.02.2015

Herausgeber

Verlag

Elsevier Science & Technology

Seitenzahl

450

Maße (L/B/H)

22,9/15,2/2,9 cm

Gewicht

829 g

Sprache

Englisch

ISBN

978-0-12-801429-5

EU-Ansprechpartner

Zeitfracht Medien GmbH
Ferdinand-Jühlke-Straße 7
99095 Erfurt
DE
produktsicherheit@zeitfracht.de

Herstelleradresse

Elsevier Science & Technology
125 London Wall
EC2Y 5AS London
GB
tradeorders@elsevier.com

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  • Produktbild: Computational Methods for Understanding Riboswitches
  • Produktbild: Computational Methods for Understanding Riboswitches
  • Part I. RNA Structure Prediction
    1. Automated 3D RNA Structure Prediction Using the RNAComposer Method for Riboswitches
    K. J. Purzycka, M. Popenda, M. Szachniuk,  M. Antczak, P. Lukasiak, J. Blazewicz and R.W. Adamiak
    2. Modeling Complex RNA Tertiary Folds with Rosetta
    Clarence Yu Cheng, Fang-Chieh Chou and Rhiju Das
    3. Computational Methods Toward Accurate RNA Structure Prediction Using Coarse-Grained and All-Atom Models
    Andrey Krokhotin and Nikolay V. Dokholyan
    4. Improving RNA Secondary Structure Prediction with Structure Mapping Data
    Michael F. Sloma and David H. Mathews
    5. Computational Prediction of Riboswitch Tertiary Structures including Pseudoknots by RAGTOP: A Hierarchical Graph Sampling Approach
    Namhee Kim, Mai Zahran and Tamar Schlick

    Part II. RNA Dynamics and Thermodynamics
    6. Using Reweighted Pulling Simulations to Characterize Conformational Changes in Riboswitches
    Francesco Di Palma, Francesco Colizzi and Giovanni Bussi
    7. Force Field Dependence of Riboswitch Dynamics
    Christian A. Hanke and Holger Gohlke
    8. Thermodynamic and Kinetic Folding of Riboswitches
    Stefan Badelt, Stefan Hammer, Christoph Flamm and Ivo L. Hofacker
    9. Integrating Molecular Dynamics Simulations with Chemical Probing Experiments using SHAPE-FIT
    Serdal Kirmizialtin, Scott P. Hennelly, Alexander Schug, Jose N. Onuchic and Karissa Y. Sanbonmatsu
    10. Using Simulations and Kinetic Network Models to Reveal the Dynamics and Functions of Riboswitches
    Jong-Chin Lin, Jeseong Yoon, Changbong Hyeon and D. Thirumalai

    Part III. Ions, Ligands, and RNA Interactions
    11. Computational Methods for Prediction of RNA Interactions with Metal Ions and Small Organic Ligands
    Anna Philips, Grzegorz ¿ach and Janusz M. Bujnicki
    12. Computational Prediction of Riboswitches
    P. Clote
    13. Computational and Experimental Studies of Reassociating RNA/DNA Hybrids Containing Split Functionalities
    Kirill A. Afonin, Eckart Bindewald, Maria Kireeva and Bruce A. Shapiro
    14. Multiscale Methods for Computational RNA Enzymology
    Maria T. Panteva, Thakshila Dissanayake, Haoyuan Chen, Brian K. Radak, Erich R. Kuechler, George M. Giambasu, Tai-Sung Lee and Darrin M. York