Scientific Data and Software
PDBtool and CIFters
The Protein Data Bank collects
macro-molecular structure data for biochemists and crystallographers. It
currently contains 900 molecules and is expected to grow to 6000 by the end
of the decade. Dr. Pu is leading the design and implementation of an
interoperable database backend of an object-oriented toolbox for the
Protein Data Bank. The goal is to provide biologists with
a state-of-the-art tookit that handles data management for data with complex
structures in an efficient way. The beta release of the PDBtool, an
object-oriented toolbox for macromolecular structure verification, is
PDBtool Home Page.
This work is in collaboration with Dr.
Phil Bourne, who is the principal investigator of the project.
Weather Data Management
This work on computational biology has been developed into an
architecture for scientific data management, to be applied in a joint
project with George Taylor of
Oregon Climate Service
and Prof. Gad Levy of
College of Atmospheric and
at the Oregon State University, and the
Department of Atmospheric
at the University of Washington.
The collaboration has two thrusts: (1) development of Internet
software to make climate data accessible to the public, particularly
Oregon people, and (2) data assimilation in large weather data sets of
Environmental Data Management
A third collaboration with scientists is the joint project with Prof.
Antonio Baptista of
Center for Coastal and Land Margin Research
and Department of Environmental Sciences and Engineering of OGI.
This project is developing software for the collection, integration,
and processing of environmental data in a regional scale.
This work is in collaboration with Prof. Darrell Long of
University of California, Santa Cruz, who is working in the
REINAS project. Two papers describe REINAS:
"REINAS: the Real-Time Environmental Information Network and
Analysis System" and
"The REINAS System Design" .
REINAS System Map
Back to Calton Pu's home page