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pV-Diagrams01:18

pV-Diagrams

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The pV diagram, which is a graph of pressure versus volume of the gas under study, is helpful in describing certain aspects of the substance. When the substance behaves like an ideal gas, the ideal gas equation describes the relationship between its pressure and volume. On a pV diagram, it is common to plot an isotherm, which is a curve showing p as a function of V with the number of molecules and the temperature fixed. Then, for an ideal gas, the product of the pressure of the gas and its...
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Optimization of Synthetic Proteins: Identification of Interpositional Dependencies Indicating Structurally and/or Functionally Linked Residues
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Visualization of protein sequence features using JavaScript and SVG with pViz.js.

Kiran Mukhyala1, Alexandre Masselot1

  • 1Department of Bioinformatics and Computational Biology, Genentech Inc., South San Francisco, CA 94080, USA.

Bioinformatics (Oxford, England)
|August 23, 2014
PubMed
Summary
This summary is machine-generated.

pViz.js is a versatile JavaScript library for visualizing protein sequence features in web browsers. It offers interactive, customizable views for bioinformatics data, enhancing protein analysis and data exploration.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Web Development

Background:

  • Interactive visualization of protein sequence features is crucial in bioinformatics.
  • Existing web-based viewers are often specific to certain data sources or use cases and lack reusability.

Purpose of the Study:

  • To introduce pViz.js, a lightweight and versatile JavaScript library for visualizing protein sequence features.
  • To provide a reusable and customizable solution for interactive protein feature display on the web.

Main Methods:

  • pViz.js is a JavaScript library that renders interactive protein feature views from sequence and feature location data.
  • The library supports predefined renderings for secondary structures and post-translational modifications.
  • Customization options allow for tailored visualizations.

Main Results:

  • pViz.js enables easy display of protein features as aligned boxes with zooming capabilities.
  • Demonstrated applications include a proteomic data visualization tool and a tool for visualizing variant effect predictor results.

Conclusions:

  • pViz.js offers a flexible and reusable solution for web-based protein sequence feature visualization.
  • The library simplifies the development of custom bioinformatics tools requiring interactive protein data display.