Chimera

UCSF Chimera is a highly extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. High-quality images and animations can be generated. Chimera includes complete documentation and several tutorials, and can be downloaded free of charge for academic, government, non-profit, and personal use. Chimera is developed by the Resource for Biocomputing, Visualization, and Informatics, funded by the National Institutes of Health (NIGMS P41-GM103311).


References in zbMATH (referenced in 34 articles )

Showing results 1 to 20 of 34.
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  1. Moscovich, Amit; Halevi, Amit; Andén, Joakim; Singer, Amit: Cryo-EM reconstruction of continuous heterogeneity by Laplacian spectral volumes (2020)
  2. Pragier, Gabi; Shkolnisky, Yoel: A common lines approach for \textitabinitio modeling of cyclically symmetric molecules (2019)
  3. Rout, Subhashree; Mahapatra, Rajani Kanta: \textitInsilico analysis of \textitplasmodiumfalciparum CDPK5 protein through molecular modeling, docking and dynamics (2019)
  4. Salas, Gicela G. Saucedo; Hernandez, Alan E. Lopez; He, Jiadi; Karki, Chitra; Xie, Yixin; Sun, Shengjie; Xian, Yuejiao; Li, Lin: Using computational approaches to study dengue virus capsid assembly (2019)
  5. Hassan, Mubashir; Abbasi, Muhammad Athar; Aziz-ur-Rehman; Siddiqui, Sabahat Zahra; Hussain, Ghulam; Shah, Syed Adnan Ali; Shahid, Muhammad; Seo, Sung-Yum: Exploration of synthetic multifunctional amides as new therapeutic agents for Alzheimer’s disease through enzyme inhibition, chemoinformatic properties, molecular docking and dynamic simulation insights (2018)
  6. Michiko, Nosaka; Setyawan, Budi; Sunaba-Mitsumasu, Syunya: Enzymatic reaction sites on a plane formed with four exon-junctions (2018)
  7. Tahir, Rana Adnan; Wu, Hao; Rizwan, Muhammad Ahmad; Jafar, Tassadaq Hussain; Saleem, Shahzad; Sehgal, Sheikh Arslan: Immunoinformatics and molecular docking studies reveal potential epitope-based peptide vaccine against DENV-NS3 protein (2018)
  8. Carr, Hamish (ed.); Garth, Christoph (ed.); Weinkauf, Tino (ed.): Topological methods in data analysis and visualization IV. Theory, algorithms, and applications. Selected papers based on the presentations at the TopoInVis workshop, Annweiler, Germany, 2015 (2017)
  9. Shivashankar, Nithin; Natarajan, Vijay: Efficient software for programmable visual analysis using Morse-Smale complexes (2017)
  10. Janaina Cruz Pereira, Ernesto Raul Caffarena, Cicero dos Santos: Boosting Docking-based Virtual Screening with Deep Learning (2016) arXiv
  11. Burkowski, Forbes J.: Computational and visualization techniques for structural bioinformatics using Chimera (2015)
  12. Burkowski, Forbes; Cheung, Yuen-Lam; Wolkowicz, Henry: Efficient use of semidefinite programming for selection of rotamers in protein conformations (2014)
  13. Dorn, Márcio; Buriol, Luciana S.; Lamb, Luis C.: MOIRAE: a computational strategy to extract and represent structural information from experimental protein templates (2014) ioport
  14. Tang, H. S.; Qu, K.; Wu, X. G.: An overset grid method for integration of fully 3D fluid dynamics and geophysics fluid dynamics models to simulate multiphysics coastal ocean flows (2014)
  15. Bajaj, Chandrajit; Bauer, Benedikt; Bettadapura, Radhakrishna; Vollrath, Antje: Nonuniform Fourier transforms for rigid-body and multidimensional rotational correlations (2013)
  16. Ellenberger, Sabrina; Schuster, Stefan; Wöstemeyer, Johannes: Correlation between sequence, structure and function for trisporoid processing proteins in the model zygomycete \textitMucormucedo (2013)
  17. English, R. Elliot; Qiu, Linhai; Yu, Yue; Fedkiw, Ronald: An adaptive discretization of incompressible flow using a multitude of moving Cartesian grids (2013)
  18. Falissard, F.: Genuinely multi-dimensional explicit and implicit generalized Shapiro filters for weather forecasting, computational fluid dynamics and aeroacoustics (2013)
  19. Chang, Kai-Chun: Revealing - 1 programmed ribosomal frameshifting mechanisms by single-molecule techniques and computational methods (2012)
  20. Hymavati; Kumar, Vivek; Sobhia, M. Elizabeth: Implication of crystal water molecules in inhibitor binding at ALR2 active site (2012)

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Further publications can be found at: http://www.cgl.ucsf.edu/chimera/docs/morerefs.html