17 January 2005 Web-based hydrodynamics computing
Author Affiliations +
Proceedings Volume 5670, Internet Imaging VI; (2005); doi: 10.1117/12.586208
Event: Electronic Imaging 2005, 2005, San Jose, California, United States
Abstract
Proteins are long chains of amino acids that have a definite 3-d conformation and the shape of each protein is vital to its function. Since proteins are normally in solution, hydrodynamics (describes the movement of solvent around a protein as a function of shape and size of the molecule) can be used to probe the size and shape of proteins compared to those derived from X-ray crystallography. The computation chain needed for these hydrodynamics calculations consists of several separate programs by different authors on various platforms and often requires 3D visualizations of intermediate results. Due to the complexity, tools developed by a particular research group are not readily available for use by other groups, nor even by the non-experts within the same research group. To alleviate this situation, and to foment the easy and wide distribution of computational tools worldwide, we developed a web based interactive computational environment (WICE) including interactive 3D visualization that can be used with any web browser. Java based technologies were used to provide a platform neutral, user-friendly solution. Java Server Pages (JSP), Java Servlets, Java Beans, JOGL (Java bindings for OpenGL), and Java Web Start were used to create a solution that simplifies the computing chain for the user allowing the user to focus on their scientific research. WICE hides complexity from the user and provides robust and sophisticated visualization through a web browser.
© (2005) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only.
Alan Shimoide, Luping Lin, Tracie-Lynne Hong, Ilmi Yoon, Sergio Ramiro Aragon, "Web-based hydrodynamics computing", Proc. SPIE 5670, Internet Imaging VI, (17 January 2005); doi: 10.1117/12.586208; http://dx.doi.org/10.1117/12.586208
PROCEEDINGS
8 PAGES


SHARE
KEYWORDS
Molecules

Java

Proteins

Visualization

3D visualizations

Crystallography

X-rays

Back to Top