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Your search keyword '"Steffen Durinck"' showing total 3 results
Start Over Author "Steffen Durinck" Journal bioinformatics
3 results on '"Steffen Durinck"'

1. BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis

Author

Arek Kasprzyk, Steffen Durinck, Wolfgang Huber, Yves Moreau, Sean Davis, Alvis Brazma, and Bart De Moor

Subjects
Statistics and Probability, SQL, Information Storage and Retrieval, Biological database, Computational biology, Ontology (information science), Biology, computer.software_genre, Biochemistry, Bioconductor, Annotation, Data retrieval, Ensembl, Databases, Protein, Molecular Biology, Oligonucleotide Array Sequence Analysis, computer.programming_language, Microarray analysis techniques, Gene Expression Profiling, Computer Science Applications, Systems Integration, Computational Mathematics, Computational Theory and Mathematics, Database Management Systems, Data mining, computer, Algorithms, Software
Abstract

Summary:biomaRt is a new Bioconductor package that integrates BioMart data resources with data analysis software in Bioconductor. It can annotate a wide range of gene or gene product identifiers (e.g. Entrez-Gene and Affymetrix probe identifiers) with information such as gene symbol, chromosomal coordinates, Gene Ontology and OMIM annotation. Furthermore biomaRt enables retrieval of genomic sequences and single nucleotide polymorphism information, which can be used in data analysis. Fast and up-to-date data retrieval is possible as the package executes direct SQL queries to the BioMart databases (e.g. Ensembl). The biomaRt package provides a tight integration of large, public or locally installed BioMart databases with data analysis in Bioconductor creating a powerful environment for biological data mining. Availability:http://www.bioconductor.org. LGPL Contact: steffen.durinck@esat.kuleuven.ac.be

Published
2005
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2. Importing MAGE-ML format microarray data into BioConductor

Author

Joke Allemeersch, Vincent J. Carey, Steffen Durinck, Yves Moreau, and Bart De Moor

Subjects
Statistics and Probability, Microarray, Computer science, Information Storage and Retrieval, computer.software_genre, Biochemistry, Bioconductor, User-Computer Interface, Databases, Genetic, Gene expression, Microarray databases, DNA microarray experiment, Molecular Biology, Oligonucleotide Array Sequence Analysis, Microarray analysis techniques, Gene Expression Profiling, Computer Science Applications, Gene expression profiling, Computational Mathematics, ComputingMethodologies_PATTERNRECOGNITION, Computational Theory and Mathematics, Gene chip analysis, Database Management Systems, Programming Languages, Data mining, computer, Software
Abstract

The microarray gene expression markup language (MAGE-ML) is a widely used XML (eXtensible Markup Language) standard for describing and exchanging information about microarray experiments. It can describe microarray designs, microarray experiment designs, gene expression data and data analysis results. We describe RMAGEML, a new Bioconductor package that provides a link between cDNA microarray data stored in MAGE-ML format and the Bioconductor framework for preprocessing, visualization and analysis of microarray experiments. Availability: http://www.bioconductor.org. Open Source

Published
2004
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