Florence Tama

发表

Poisson image denoising by piecewise principal component analysis and its application in single-particle X-ray diffraction imaging

Jie Yang, Qiyu Jin, Osamu Miyashita, 2018, IET Image Process..

Laboratory at RIKEN: Computational Structural Biology Research Unit, Computational Biophysics Research Team, RIKEN Advanced Institute for Computational Science

Florence Tama, Osamu Miyashita, 2013 .

Normal Mode Flexible Fitting of High-Resolution Structures of Biological Molecules Toward SAXS Data

Florence Tama, Christian Gorba, F. Tama, 2010, Bioinformatics and biology insights.

Hybrid Electron Microscopy Normal Mode Analysis graphical interface and protocol.

Florence Tama, Carlos Oscar S Sorzano, José Miguel de la Rosa-Trevín, 2014, Journal of structural biology.

Steered Molecular Dynamics Simulations of a Type IV Pilus Probe Initial Stages of a Force-Induced Conformational Transition

Florence Tama, Joseph L. Baker, Nicolas Biais, 2013, PLoS Comput. Biol..

Flexible fitting to cryo‐EM density map using ensemble molecular dynamics simulations

Osamu Miyashita, Florence Tama, Yuji Sugita, 2017, J. Comput. Chem..

Topology representing neural networks reconcile biomolecular shape, structure, and dynamics

Florence Tama, Pablo Chacón, Julio A. Kovacs, 2004, Neurocomputing.

Elastic image registration to fully explore macromolecular dynamics by electron microscopy

Qiyu Jin, Florence Tama, Slavica Jonic, 2014, 2014 IEEE International Conference on Image Processing (ICIP).

Consensus among flexible fitting approaches improves the interpretation of cryo-EM data.

Florence Tama, Aqeel Ahmed, Karissa Y Sanbonmatsu, 2012, Journal of structural biology.

Consensus among multiple approaches as a reliability measure for flexible fitting into cryo-EM data.

Florence Tama, Aqeel Ahmed, F. Tama, 2013, Journal of structural biology.

3DEM Loupe: analysis of macromolecular dynamics using structures from electron microscopy

Alberto D. Pascual-Montano, Florence Tama, Slavica Jonic, 2013, Nucleic Acids Res..

Integrative/Hybrid Modeling Approaches for Studying Biomolecules.

Osamu Miyashita, Florence Tama, Ashutosh Srivastava, 2020, Journal of molecular biology.

Computational Protocol for Assessing the Optimal Pixel Size to Improve the Accuracy of Single-particle Cryo-electron Microscopy Maps

Osamu Miyashita, Florence Tama, Sahil Chhabra, 2020, J. Chem. Inf. Model..

Searching for 3D structural models from a library of biological shapes using a few 2D experimental images

Osamu Miyashita, Florence Tama, Sandhya P. Tiwari, 2018, BMC Bioinformatics.

Normal-mode flexible fitting of high-resolution structure of biological molecules toward one-dimensional low-resolution data.

Florence Tama, Osamu Miyashita, Christian Gorba, 2008, Biophysical journal.

Protocol for Retrieving Three-Dimensional Biological Shapes for a Few XFEL Single-Particle Diffraction Patterns

Osamu Miyashita, Florence Tama, Sandhya P. Tiwari, 2021, J. Chem. Inf. Model..

Hybrid Methods for Macromolecular Modeling by Molecular Mechanics Simulations with Experimental Data.

Osamu Miyashita, Florence Tama, F. Tama, 2018, Advances in experimental medicine and biology.

Ribosome motions modulate electrostatic properties

Joanna Trylska, Florence Tama, J Andrew McCammon, 2004, Biopolymers.

Gaussian mixture model for coarse-grained modeling from XFEL.

Osamu Miyashita, Florence Tama, Yuki Mochizuki, 2018, Optics express.

Phosphorylated smooth muscle heavy meromyosin shows an open conformation linked to activation.

Kenneth A. Taylor, Florence Tama, F. Tama, 2012, Journal of molecular biology.

Reconstruction of low-resolution molecular structures from simulated atomic force microscopy images.

Osamu Miyashita, Florence Tama, Bhaskar Dasgupta, 2020, Biochimica et biophysica acta. General subjects.

Molecular model of a soluble guanylyl cyclase fragment determined by small-angle X-ray scattering and chemical cross-linking.

Florence Tama, Aqeel Ahmed, Linda Breci, 2013, Biochemistry.

Protein dynamics regulate distinct biochemical properties of cryptochromes in mammalian circadian rhythms

Florence Tama, Christin Rakers, Carrie L. Partch, 2019, bioRxiv.

Electrostatic properties of cowpea chlorotic mottle virus and cucumber mosaic virus capsids

Joanna Trylska, Nathan A. Baker, Florence Tama, 2006, Biopolymers.

Macromolecular structures probed by combining single-shot free-electron laser diffraction with synchrotron coherent X-ray imaging

Takashi Kameshima, Osamu Miyashita, Florence Tama, 2014, Nature Communications.

Hybrid approach for structural modeling of biological systems from X-ray free electron laser diffraction patterns.

Osamu Miyashita, Florence Tama, Slavica Jonic, 2016, Journal of structural biology.

The requirement for mechanical coupling between head and S2 domains in smooth muscle myosin ATPase regulation and its implications for dimeric motor function.

Florence Tama, Michael Feig, Charles L Brooks, 2005, Journal of molecular biology.

Single-particle XFEL 3D reconstruction of ribosome-size particles based on Fourier slice matching: requirements to reach subnanometer resolution.

Osamu Miyashita, Florence Tama, Slavica Jonic, 2018, Journal of synchrotron radiation.

Iterative elastic 3D-to-2D alignment method using normal modes for studying structural dynamics of large macromolecular complexes.

Qiyu Jin, Florence Tama, Carlos Oscar S Sorzano, 2014, Structure.

Allosteric regulation of DNA cleavage and sequence-specificity through run-on oligomerization.

Dmitry Lyumkis, Clinton S Potter, Bridget Carragher, 2013, Structure.

Structure of the E. coli protein-conducting channel bound to a translating ribosome

Florence Tama, Joachim Frank, Christiane Schaffitzel, 2005, Nature.

Role of Computational Methods in Going beyond X-ray Crystallography to Explore Protein Structure and Dynamics

Osamu Miyashita, Florence Tama, Arpita Srivastava, 2018, International journal of molecular sciences.

The 13 Å Structure of a Chaperonin GroEL–Protein Substrate Complex by Cryo-electron Microscopy

Charles L. Brooks, Florence Tama, Mark T. Fisher, 2005 .

The mechanism and pathway of pH induced swelling in cowpea chlorotic mottle virus.

Florence Tama, Charles L Brooks, C. Brooks, 2002, Journal of molecular biology.

The 13 angstroms structure of a chaperonin GroEL-protein substrate complex by cryo-electron microscopy.

Florence Tama, F. Tama, C. Brooks, 2005, Journal of molecular biology.

Biased coarse-grained molecular dynamics simulation approach for flexible fitting of X-ray structure into cryo electron microscopy maps.

Ivan Grubisic, Osamu Miyashita, Florence Tama, 2010, Journal of structural biology.

Excited states of ribosome translocation revealed through integrative molecular modeling

Florence Tama, José N. Onuchic, Paul C. Whitford, 2011, Proceedings of the National Academy of Sciences.

Three-dimensional reconstruction for coherent diffraction patterns obtained by XFEL

Osamu Miyashita, Florence Tama, Slavica Jonic, 2017, Journal of synchrotron radiation.

Network visualization of conformational sampling during molecular dynamics simulation.

Osamu Miyashita, Florence Tama, Joseph L. Baker, 2013, Journal of molecular graphics & modelling.

Structure modeling from small angle X-ray scattering data with elastic network normal mode analysis.

Osamu Miyashita, Florence Tama, Christian Gorba, 2011, Journal of structural biology.

Model of the toxic complex of anthrax: Responsive conformational changes in both the lethal factor and the protective antigen heptamer

Florence Tama, Charles L Brooks, C. Brooks, 2006, Protein science : a publication of the Protein Society.

Mega-Dalton biomolecular motion captured from electron microscopy reconstructions.

Florence Tama, Pablo Chacón, Willy Wriggers, 2003, Journal of molecular biology.