In this article, we present CoPub 5.0, a publicly available text mining system, which uses Medline abstracts to calculate robust statistics for keyword co-occurrences. CoPub was initially developed for the analysis of microarray data, but we broadened the scope by implementing new technology and new …

Onder invloed van digitalisering en internet is de afgelopen jaren de discussie over auteursrechten in het journalistieke veld opgelaaid. Verschillende aspecten spelen een rol in deze discussie. Sommigen benadrukken het belang van de online rechten van de makers en stellen dat het traditionele systeem …

The scientific literature represents a rich source for retrieval of knowledge on associations between biomedical concepts such as genes, diseases and cellular processes. A commonly used method to establish relationships between biomedical concepts from literature is co-occurrence. Apart from its use …

Phylogenetic patterns show the presence or absence of certain genes in a set of full genomes derived from different species. They can also be used to determine sets of genes that occur only in certain evolutionary branches. Previously, we presented a database named PhyloPat which allows the complete …

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Several models in data analysis are estimated by minimizing the objective function defined as the residual sum of squares between the model and the data. A necessary and sufficient condition for the existence of a least squares estimator is that the objective function attains its infimum at a unique …

The analysis of regulatory regions in genome sequences is strongly based on the detection of potential transcription factor binding sites. The preferred models for representation of transcription factor binding specificity have been termed position-specific scoring matrices. JASPAR is an open-access …