A tool for gene expression based PubMed search through combining data sources

Authors:
Maksym Korotkiy;Rutger Middelburg;Henk Dekker;Frank Van Harmelen;Jan Lankelma
Affiliations:
Division of Computer Science,;Department of Medical Oncology, VU University Medical Center;Department of Medical Oncology, VU University Medical Center;Division of Computer Science,;Department of Medical Oncology, VU University Medical Center
Venue:
Bioinformatics
Year:
2004

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Sequential patterns mining and gene sequence visualization to discover novelty from microarray data

Journal of Biomedical Informatics

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Abstract

Summary: We present a new tool for the semi-automated querying of PubMed using a batch of tens to thousands of GenBank accession numbers or UniGene cluster ids. By combining information from UniGene and SWISS-PROT, microGENIE obtains information on the biological relevance of expressed genes, as identified by micro-array experiments, with minimal user intervention and time investment. Availability: microGENIE is freely available from http://www.cs.vu.nl/microgenie Supplementary information: The web site above supplies examples of input and output files.