NDLI: cellPACK: a virtual mesoscope to model and visualize structural systems biology.

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cellPACK: a virtual mesoscope to model and visualize structural systems biology.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Johnson, Graham T. Autin, Ludovic Al-Alusi, Mostafa Goodsell, David S. Sanner, Michel F. Olson, Arthur J.
Description	Author Affiliation: Johnson GT ( 1] Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA. [2] Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, San Francisco, California, USA. [3] California Institute for Quantitative); Autin L ( Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.); Al-Alusi M ( Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.); Goodsell DS ( Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.); Sanner MF ( Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.); Olson AJ ( Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California, USA.)
Abstract	cellPACK assembles computational models of the biological mesoscale, an intermediate scale (10-100 nm) between molecular and cellular biology scales. cellPACK's modular architecture unites existing and novel packing algorithms to generate, visualize and analyze comprehensive three-dimensional models of complex biological environments that integrate data from multiple experimental systems biology and structural biology sources. cellPACK is available as open-source code, with tools for validation of models and with 'recipes' and models for five biological systems: blood plasma, cytoplasm, synaptic vesicles, HIV and a mycoplasma cell. We have applied cellPACK to model distributions of HIV envelope protein to test several hypotheses for consistency with experimental observations. Biologists, educators and outreach specialists can interact with cellPACK models, develop new recipes and perform packing experiments through scripting and graphical user interfaces at http://cellPACK.org/.
File Format	HTM / HTML
ISSN	15487091
e-ISSN	15487105
DOI	10.1038/nmeth.3204
Journal	Nature Methods
Issue Number	1
Volume Number	12
Language	English
Publisher	Nature Publishing Group
Publisher Date	2015-01-01
Publisher Place	United States
Access Restriction	Open
Subject Keyword	Discipline Clinical Laboratory Techniques Algorithms Models, Biological Systems Biology Computational Biology Computer Simulation Hiv Ultrastructure Molecular Biology Research Support, N.i.h., Extramural Research Support, Non-u.s. Gov't Validation Studies
Content Type	Text
Resource Type	Article
Subject	Cell Biology Biochemistry Molecular Biology Biotechnology

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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cellPACK: A Virtual Mesoscope to Model and Visualize Structural Systems Biology

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cellPACK: a virtual mesoscope to model and visualize structural systems biology.

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cellPACK: A Virtual Mesoscope to Model and Visualize Structural Systems Biology

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