Three New Bioinformatics Tools Available
The NIAID sponsored Pathogen Functional Genomics Resource Center (PFGRC) at the J. Craig Venter Institute is pleased to announce the release of three new, free open-source software tools: Magnolia, Ginkgo and APEX. Magnolia is a microarray data management and export system for researchers who use PFGRC microarrays. The software greatly simplifies the tasks of organizing experimental data and submitting it to a public data repository. Ginkgo is a Comparative Genomic Hybridization (CGH) and expression microarray data analysis package. Several normalization, data filtering and imputation, and replicate microarray functions are implemented in an intuitive graphical framework. The APEX tool is an implementation of the Absolute Protein Expression quantitation technique. It can compute protein abundance values for LC-MS/MS proteomics datasets, quantifying hundreds or thousands of proteins. Links to additional information on each of these new software tools is available from the PFGRC's bioinformatics page.
Microarray Suggestion Criteria
The National Institute of Allergy and Infectious Diseases (NIAID) supported Pathogen Functional Genomics Resource Center (PFGRC) designs, constructs, and distributes glass slide DNA microarrays for pathogens and biodefense related organisms (Select A-C agents). Currently, the PFGRC supports DNA microarrays for the 38 organisms listed here. In continuing its efforts to provide the infectious disease and biodefense communities with the microarray resources most relevant to their research efforts, the PFGRC is soliciting input for selection of its next set of reference/species microarrays. The criteria for organism selection may be found here.
April 20, 2007
PFGRC Call for "White Papers" in Functional Genomics and Proteomics
The National Institute of Allergy and Infectious Diseases (NIAID)/NIH/DHHS Pathogen Functional Genomics Resource Center (PFGRC) at the J. Craig Venter Institute (JCVI) is announcing a call for White Papers in the areas of Gene Expression studies, Comparative Genomics, Gene Knock Outs, Proteomics and Bioinformatics as well as associated methodologies and technologies. It is our desire to continue to identify the most relevant resources and collaborative opportunities between the scientific community and our Center. The PFGRC will make its resources, technology platforms, and scientific and technical expertise available for functional genomics and proteomics studies for the purpose of developing genomic/proteomic data sets of broad interest and value to the scientific community. To this end, the "White Paper" concept is designed to provide outreach to the scientific community such that investigators can propose collaborative projects that are responsive to the greater resource and research needs of the infectious disease and biodefense communities utilizing the extensive resources and expertise provided by the PFGRC. For details on the white paper process, including submission of white paper requests and review and selection process, please go to the following link (White Paper Requests, Submission Process, Review and Selection Process).