SOLICITATION NOTICE
D -- (NCICB) Cancer Array Informatics Project
- Notice Date
- 4/24/2006
- Notice Type
- Solicitation Notice
- NAICS
- 541511
— Custom Computer Programming Services
- Contracting Office
- Department of Health and Human Services, National Institutes of Health, National Cancer Institute, Bldg 427, Room 12, Frederick, MD, 21702
- ZIP Code
- 21702
- Solicitation Number
- S06-241
- Response Due
- 5/15/2006
- Archive Date
- 5/30/2006
- Description
- (Other accepted NAICS Codes: 541512, 541513 and 541519) The National Cancer Institute Center for Bioinformatics (NCICB) Cancer Array Informatics Project (caArray) is seeking a Subcontractor with adequate database support, domain knowledge in microarray, technical leadership, and program management services. These service professionals will work in concert with the NCICB appointed caArray Project Manager. These experts must have had previous experience in: microarray databases and related software, n-tier architecture and design; Java and database application development, software and data model design; and robust software development methodology that optimizes for high quality deliverables. The Subcontractor will include test plan development, software quality assurance procedures, and professional project management activities in its planning and execution. Details included in the attached Request For Proposal (RFP). Background: The (NCICB) cancer array informatics project, caArray, consists of a microarray database and data analysis and visualization tools. CaArray is an open source project, and the source code and APIs are available from the caArray Informatics page. The caArray project provides NCI intramural and extramural researchers with technologies to efficiently store, retrieve, and analyze cancer gene expression data. The caArray project supports several NCI-funded programs, including caBIG, SPOREs, MMHCC, and the NCI Director?s Challenge. The caArray project includes the implementation and deployment of a microarray repository that is accessible via a web portal and programmatic APIs. The caArray platform allows researchers to submit and retrieve gene expression data. Data persisted in the caArray database can be analyzed using NCICB as well as third-party analysis tools. The application is clearly divided into front end, middle tier and back ends. All of experiment annotation data is entered via the front end portal and persisted in the database. Array design (MAGE-ML for Affymetrix Array designs, Gal files for GenePix) are also parsed and stored into the caArray database. Experiment data files (CEL and CHP files for Affymetrix and GPR for GenePix Result Format) are converted into Net CDF format for faster access to individual spot values and stored on the server file system (Network Common Data Form http://www.unidata.ucar.edu/software/netcdf/ ). The original file (experiment data file) is also archived on the file server. All writes to the back end via the data access middle tier, which utilizes OJB and EJB for persisting into the database. The caArray 1.3.1 release involved the initial development of core caArray functionality. This functionality included support for microarray data submission and retrieval based on industry standards for microarray data. These standards included the Microarray Gene Expression Object Model (MAGE-OM), Minimal Information About a Microarray Experiment (MIAME), and terminologies defined by the Microarray Gene Expression Data Society (MGED) Ontology development effort. The caArray 1.3.1 release supports MGED Ontology version
- Place of Performance
- Address: National Cancer Institute Center for Bioinformatics, 6116 Executive Blvd., Suite 403 Rockville, MD
- Zip Code: 20852
- Country: USA
- Zip Code: 20852
- Record
- SN01033742-W 20060426/060424220252 (fbodaily.com)
- Source
-
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