Analyses and web interfaces for protein subcellular localization and gene expression data

buir.advisorÇetin-Atalay, Rengül
dc.contributor.authorBilen, Biter
dc.departmentDepartment of Molecular Biology and Geneticsen_US
dc.descriptionCataloged from PDF version of article.en_US
dc.description.abstractIn order to benefit maximally from large scale molecular biology data generated by recent developments, it is important to proceed in an organized manner by developing databases, interfaces, data visualization and data interpretation tools. Protein subcellular localization and microarray gene expression are two of such fields that require immense computational effort before being used as a roadmap for the experimental biologist. Protein subcellular localization is important for elucidating protein function. We developed an automatically updated searchable and downloadable system called model organisms proteome subcellular localization database (MEP2SL) that hosts predicted localizations and known experimental localizations for nine eukaryotes. MEP2SL localizations highly correlated with high throughput localization experiments in yeast and were shown to have superior accuracies when compared with four other localization prediction tools based on two different datasets. Hence, MEP2SL system may serve as a reference source for protein subcellular localization information with its interface that provides various search and download options together with links and utilities for further annotations. Microarray gene expression technology enables monitoring of whole genome simultaneously. We developed an online installable searchable open source system called differentially expressed genes (DEG) that includes analysis and retrieval interfaces for Affymetrix HG-U133 Plus 2.0 arrays. DEG provides permanent data storage capabilities with its integration into a database and being an installable online tool and is valuable for groups who are not willing to submit their data on public servers.en_US
dc.description.statementofresponsibilityBilen, Biteren_US
dc.format.extentxii, 60 leaves, illustrations, graphicsen_US
dc.publisherBilkent Universityen_US
dc.subjectprotein subcellular localization predictionen_US
dc.subjectweb interface and databaseen_US
dc.subjecteukaryotic model organismsen_US
dc.subjectmicroarray gene expressionen_US
dc.subject.lccQH506 .B55 2007en_US
dc.subject.lcshMolecular biology.en_US
dc.titleAnalyses and web interfaces for protein subcellular localization and gene expression dataen_US
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