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Protocols

Tachyon specifications

Information


Unique identifier OMICS_11002
Name Tachyon
Interface Web user interface, Application programming interface
Restrictions to use None
Input data Protein sequence(s)
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Sebastian Maurer Stroh

Publication for Tachyon

Tachyon citations

 (12)
call_split

Lignin peroxidase ligand access channel dysfunction in the presence of atrazine

2018
Sci Rep
PMCID: 5902622
PMID: 29662099
DOI: 10.1038/s41598-018-24478-w
call_split See protocol

[…] Rendering: Tachyon Parallel/Multiprocessor Ray Tracer (VMD software plugin)Final format: GIMP 2.8, compression: LZW Rendering: Tachyon Parallel/Multiprocessor Ray Tracer (VMD software plugin)Final format: GIMP 2 […]

library_books

Insights Into the Bifunctional Aphidicolan 16 ß ol Synthase Through Rapid Biomolecular Modeling Approaches

2018
PMCID: 5902962
PMID: 29692986
DOI: 10.3389/fchem.2018.00101

[…] niversity of Illinois at Urbana-Champaign. For high resolution pictures the protein was prepared by Visual Molecular Dynamics (http://www.ks.uiuc.edu/Research/vmd/; Humphrey et al., ) and rendered by Tachyon implemented in the VMD software package (Stone, ). […]

library_books

Salt bridges gate α catenin activation at intercellular junctions

2018
Mol Biol Cell
PMCID: 5909925
PMID: 29142072
DOI: 10.1091/mbc.E17-03-0168

[…] for the YPet position (between residues 639 and 640) because the amino acids 636–665 in the α-catenin crystal structure are disordered (). Snapshots of α-catenin conformations were created using the Tachyon ray tracing library built-in to VMD (). […]

library_books

Crystal structure and RNA binding properties of an Hfq homolog from the deep branching Aquificae: conservation of the lateral RNA binding mode

2017
Acta Crystallogr D Struct Biol
PMCID: 5379935
PMID: 28375142
DOI: 10.1107/S2059798317000031

[…] 011).All molecular-graphics illustrations in Figs. 5–8 and Supplementary Figs. S3–S6 were created in PyMOL, with the exception of Supplementary Figs. S4(e) and S4(f) (created in VMD and rendered with Tachyon). LigPlot+ (Laskowski & Swindells, 2011) was used in creating schematic diagrams of interatomic contacts, as in Fig. 8. Many of the scientific software tools were used as SBGrid-supported appl […]

library_books

Quantum mechanics of 4 derivative theories

2016
PMCID: 5320946
PMID: 28280424
DOI: 10.1140/epjc/s10052-016-4079-8

[…] n and norm ⟨En|En⟩=-1;0) pairs of complex conjugated eigenvalues, En=Em∗ with ⟨En|Em⟩≠0 and zero norm, ⟨En|En⟩=0.In the classical analog, the latter possibility corresponds to a ghost which is also a tachyon, which is a different kind of instability, to be avoided even in absence of ghosts. +) orthogonal eigenstates ⟨En|Em⟩=0 with real En and norm ⟨En|En⟩=+1; -) orthogonal eigenstates ⟨En|Em⟩=0 wi […]

library_books

Time reversal and charge conjugation in an embedding quantum simulator

2015
Nat Commun
PMCID: 4532877
PMID: 26239028
DOI: 10.1038/ncomms8917

[…] ivistic quantum mechanics and the quantum field theory. For example, electrons propagating through graphene are described by the (2+1)-dimensional Dirac equation, and the symmetry breaking induced by tachyon condensation is described by a (1+1)-dimensional Dirac-like equation with imaginary mass, a non-Hamiltonian system. Recently, a quantum simulation of the Majorana dynamics was performed in a p […]

Citations

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Tachyon institution(s)
Bioinformatics Institute (BII), Agency for Science Technology and Research (A*STAR), Matrix, Singapore; Institute of High Performance Computing (IHPC), Agency for Science Technology and Research (A*STAR), Connexis, Singapore; Department of Biological Sciences (DBS), National University of Singapore (NUS), Singapore; School of Computer Engineering (SCE), Nanyang Technological University (NTU), Singapore; School of Biological Sciences (SBS), Nanyang Technological University (NTU), Singapore
Tachyon funding source(s)
This work was supported by the Agency for Science Technology and Research (A*STAR), Singapore.

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