Bioinformatics Cyber-infrastructure for Genomics and Proteomics in ...

Bioinformatics Cyber
-
infrastructure for Genomics and Proteomics in
Systems Biology


Abstract

This presentation covers my efforts and projects on cyber
-
infrastructure establishments in
the Computational Systems Biology Center at the University of Virginia (
UVa) and in the
NIAID
-
funded Administrative Center for the National Bio
-
defense Proteomics Program
on Human Pathogens at the Virginia Bioinformatics Institute.



This t
alk includes the
following
sections: (1) Introduction of concepts on systems biology and

cyber
-
infrastructure, and their correlation for cutting
-
edge life science research and discovery;
(2) Strategies of genomic sequence annotation, based on the example instances of UVa
plant
-
based genomics knowledgebases; (3) High performance and throughput

computing
for systems biology data processing, computational process integration,


and search
engine comparison for peptide and protein identification on mass spectrometry
-
generated
raw proteomics data; (4) Computational software systems and strategies fo
r proteome
quantification and proteomics profiling studies, data mining and target discovery based
on networks and systems biology concepts; (5) Methodologies on implementation of
relational database management system and complex biological knowledge wareh
ouse
for proteomics data management, systems biology data integration, biology knowledge
generation and augmentation based on genome
-
scale systems biology datasets