TY - CONF T1 - Dynamic querying for pattern identification in microarray and genomic data T2 - 2003 International Conference on Multimedia and Expo, 2003. ICME '03. Proceedings Y1 - 2003 A1 - Hochheiser,H. A1 - Baehrecke,E. H A1 - Mount, Stephen M. A1 - Shneiderman, Ben KW - Bioinformatics KW - data sets KW - Displays KW - dynamic querying KW - expression profiles KW - Frequency KW - Gene expression KW - genes KW - Genetics KW - genomic data KW - Genomics KW - linear ordered sequences KW - macromolecules KW - medical signal processing KW - Mice KW - Microarray KW - pattern identification KW - pattern recognition KW - premRNA splicing KW - Query processing KW - sequences KW - Signal processing KW - splicing KW - TimeSearcher AB - Data sets involving linear ordered sequences are a recurring theme in bioinformatics. Dynamic query tools that support exploration of these data sets can be useful for identifying patterns of interest. This paper describes the use of one such tool - timesearcher - to interactively explore linear sequence data sets taken from two bioinformatics problems. Microarray time course data sets involve expression levels for large numbers of genes over multiple time points. Timesearcher can be used to interactively search these data sets for genes with expression profiles of interest. The occurrence frequencies of short sequences of DNA in aligned exons can be used to identify sequences that play a role in the pre-mRNA splicing. Timesearcher can be used to search these data sets for candidate splicing signals. JA - 2003 International Conference on Multimedia and Expo, 2003. ICME '03. Proceedings PB - IEEE VL - 3 SN - 0-7803-7965-9 M3 - 10.1109/ICME.2003.1221346 ER - TY - CONF T1 - Integrating distributed scientific data sources with MOCHA and XRoaster T2 - Thirteenth International Conference on Scientific and Statistical Database Management, 2001. SSDBM 2001. Proceedings Y1 - 2001 A1 - Rodriguez-Martinez,M. A1 - Roussopoulos, Nick A1 - McGann,J. M A1 - Kelley,S. A1 - Mokwa,J. A1 - White,B. A1 - Jala,J. KW - client-server systems KW - data sets KW - data sites KW - Databases KW - Distributed computing KW - distributed databases KW - distributed scientific data source integration KW - Educational institutions KW - graphical tool KW - hypermedia markup languages KW - IP networks KW - java KW - Large-scale systems KW - Maintenance engineering KW - meta data KW - metadata KW - Middleware KW - middleware system KW - MOCHA KW - Query processing KW - remote sites KW - scientific information systems KW - user-defined types KW - visual programming KW - XML KW - XML metadata elements KW - XML-based framework KW - XRoaster AB - MOCHA is a novel middleware system for integrating distributed data sources that we have developed at the University of Maryland. MOCHA is based on the idea that the code that implements user-defined types and functions should be automatically deployed to remote sites by the middleware system itself. To this end, we have developed an XML-based framework to specify metadata about data sites, data sets, and user-defined types and functions. XRoaster is a graphical tool that we have developed to help the user create all the XML metadata elements to be used in MOCHA JA - Thirteenth International Conference on Scientific and Statistical Database Management, 2001. SSDBM 2001. Proceedings PB - IEEE SN - 0-7695-1218-6 M3 - 10.1109/SSDM.2001.938560 ER -