| Core
Laboratories
Bioinformatics
Director:
Michael Skinner
Contact:
Matt Settles
Contact:
509-335-4596 or msettles@wsu.edu
http://www.bioinformatics.wsu.edu
Services and Infrastructure
The WSU Bioinformatics Core is a multidisciplinary service center
that assists research projects in bioinformatics and allied fields
such as genomics and proteomics. As part of the Center for Integrated
Biotechnology and Center for Reproductive Biology, the Bioinformatics
Core will foster faculty research collaborations and operate a Bioinformatics
User Lab for WSU researchers.
The Bioinformatics Core facility provides investigators with centralized
genomics and proteomics data storage and analysis. The Core consists
of secure high performance servers and storage devices linked to
the Genomics and Proteomics Cores. The data generated by these core
facilities is stored and analyzed on the bioinformatics core central
servers. The individual users can also link to central servers in
order to upload/download their data for analysis from/to local terminals.
Bioinformatics Core services are accessible through the WSU bioinformatics
web site. The web site serves as a centralized hub (web-based client/server
interfaces) with links to the servers, software packages, WWW mirror
sites for DNA/protein analysis and licensed DNA/Protein/microarray
analysis software packages.
Services:
The Bioinformatics Core will provide the following services:
Consulting - Providing support to investigators' biological data acquisition,
management and analysis needs.
Bioinformatics
application programming - Design and implementation of relational
databases and applications.
Data
analysis –Proteomics
and microarray data analysis, DNA/RNA and protein sequence
and statistical analysis and storage. The following software
will
be made available through centralized servers:
- Genet
(Silicon Genetics) - capture and storage of microarray data
from Genomics and Proteomics Cores (100 nodes available)
- Limited
version of GeneSpring on Server
- 4
copies of full function GeneSpring on each terminal
- Genesiffter.net-
5-7 floating licenses
- Array
analysis software with remote access (TM4 package from TIGR,
cluster, gene expression etc.)
- Flat
file storage and share facility through Genet (working on acquiring
Oracle DBM)
- BLAST
Server
- PRINTS
- COG
(Clusters of orthologus groups for phylogenetic classification)
- BCM
Search Launcher Batch Client
- Assembler
(large scale assembly of EST’s BAC’s and small
genomes)
- GCG
package (accelrys): Wisconsin Package
Support -
Installation and maintenance for various software packages
under Linux, Windows, or Mac platforms. Training
software users. Data
Storage and backup: Providing storage for the
databases and data-intensive projects.
LIMS
(Laboratory Information Management Systems):
Provide on-line access to data management and services
to
researchers on the
network. LIMS
will also
integrate experimental design, data and analysis
from Genomics, Proteomics and Bioinformatics Cores
(currently
LIMS services
will be handled
through Genet)
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