Literature DB >> 32339979

Computational pipeline for estimation of small-molecule T1 relaxation times.

Joseph C Wildenberg1, Nicholas R Perkons2, Gabrielle Pilla2, Stephen Kadlecek3, Terence P F Gade4.   

Abstract

Molecular imaging of biologic molecules and cellular processes is increasingly accessible through hyperpolarization of chemically-equivalent stable isotopes, most commonly 13C. However, many molecules are poor candidates for imaging due to their biophysical properties, particularly short spin-lattice relaxation times (T1). The inability to consistently predict the T1 from molecular structure, lack of experimental data for many biologically-relevant molecules and the high cost of developing probes can limit the development of hyperpolarized probes. We describe an in silico pipeline for modeling the estimated T1 of molecules of interest in order to address this deficiency. Applying a hybrid approach that incorporates molecular dynamics as well as quantum mechanics, this pipeline estimated T1 values that closely matched empirically determined values providing proof-of-principle that this approach may be used to facilitate MR probe development. Published by Elsevier Inc.

Entities:  

Keywords:  Hyperpolarization; Pyruvate; Simulation; Spectroscopy; T1

Mesh:

Substances:

Year:  2020        PMID: 32339979      PMCID: PMC8826363          DOI: 10.1016/j.jmr.2020.106733

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  27 in total

1.  Calculation of NMR-relaxation parameters for flexible molecules from molecular dynamics simulations.

Authors:  C Peter; X Daura; W F van Gunsteren
Journal:  J Biomol NMR       Date:  2001-08       Impact factor: 2.835

2.  In vivo magnetic resonance imaging of glucose - initial experience.

Authors:  Hyla Allouche-Arnon; Trevor Wade; Lanette Friesen Waldner; Valentina N Miller; J Moshe Gomori; Rachel Katz-Brull; Charles A McKenzie
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3.  Multi-Timescale Dynamics in Intrinsically Disordered Proteins from NMR Relaxation and Molecular Simulation.

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Journal:  J Phys Chem Lett       Date:  2016-06-20       Impact factor: 6.475

4.  Selection of endogenous 13C substrates for observation of intracellular metabolism using the dynamic nuclear polarization technique.

Authors:  Masafumi Harada; Hitoshi Kubo; Takamasa Abe; Hiroshi Maezawa; Hideki Otsuka
Journal:  Jpn J Radiol       Date:  2010-02-26       Impact factor: 2.374

Review 5.  Chemistry and biochemistry of 13C hyperpolarized magnetic resonance using dynamic nuclear polarization.

Authors:  Kayvan R Keshari; David M Wilson
Journal:  Chem Soc Rev       Date:  2013-12-20       Impact factor: 54.564

6.  Metabolic imaging of energy metabolism in traumatic brain injury using hyperpolarized [1-13C]pyruvate.

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Journal:  Sci Rep       Date:  2017-05-15       Impact factor: 4.379

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Authors:  David S Wishart; Craig Knox; An Chi Guo; Roman Eisner; Nelson Young; Bijaya Gautam; David D Hau; Nick Psychogios; Edison Dong; Souhaila Bouatra; Rupasri Mandal; Igor Sinelnikov; Jianguo Xia; Leslie Jia; Joseph A Cruz; Emilia Lim; Constance A Sobsey; Savita Shrivastava; Paul Huang; Philip Liu; Lydia Fang; Jun Peng; Ryan Fradette; Dean Cheng; Dan Tzur; Melisa Clements; Avalyn Lewis; Andrea De Souza; Azaret Zuniga; Margot Dawe; Yeping Xiong; Derrick Clive; Russ Greiner; Alsu Nazyrova; Rustem Shaykhutdinov; Liang Li; Hans J Vogel; Ian Forsythe
Journal:  Nucleic Acids Res       Date:  2008-10-25       Impact factor: 16.971

8.  Avogadro: an advanced semantic chemical editor, visualization, and analysis platform.

Authors:  Marcus D Hanwell; Donald E Curtis; David C Lonie; Tim Vandermeersch; Eva Zurek; Geoffrey R Hutchison
Journal:  J Cheminform       Date:  2012-08-13       Impact factor: 5.514

9.  Neuronal shot noise and Brownian 1/f2 behavior in the local field potential.

Authors:  Joshua Milstein; Florian Mormann; Itzhak Fried; Christof Koch
Journal:  PLoS One       Date:  2009-02-03       Impact factor: 3.240

Review 10.  Imaging Cancer Metabolism: Underlying Biology and Emerging Strategies.

Authors:  Austin R Pantel; Daniel Ackerman; Seung-Cheol Lee; David A Mankoff; Terence P Gade
Journal:  J Nucl Med       Date:  2018-07-24       Impact factor: 10.057

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  1 in total

1.  Functional Genetic Screening Enables Theranostic Molecular Imaging in Cancer.

Authors:  Nicholas R Perkons; Omar Johnson; Gabrielle Pilla; Enri Profka; Michael Mercadante; Daniel Ackerman; Terence P F Gade
Journal:  Clin Cancer Res       Date:  2020-06-04       Impact factor: 12.531

  1 in total

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