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Another consideration is that ontologies change over time and managing this in the context of annotations is problematic.
MagicViewer (Hou et al., 2010) is also capable of displaying large-scale short-read alignments in the context of annotations.
MagicViewer [ 19] is also capable of displaying large-scale short read alignments in the context of annotations and provides a pipeline for genetic variation detection, annotation and visualization.
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Note that these four approaches have been used in the context of annotation-based semantic similarity measures.
As pointed out previously, several studies have attempted to normalize the Resnik similarity measure in the context of annotation-based approaches.
While NGSView is not intended to replace genome browsers like UCSC (Kuhn et al., 2009) and Ensembl (Hubbard et al., 2009), the general capability of displaying spatial data described above enables analysis of sequencing data in the context of annotation data.
Here, we perform an experimental evaluation of different correction factors suggested in the context of annotation-based approaches and assess the impact of different normalization models proposed in the context of the Resnik approach compared to the normalization idea used in the GO-universal metric.
We have performed experimental evaluations of different correction factors suggested in the context of annotation-based approaches and assess the impact of different normalization models proposed in the context of the Resnik approach, as well as different topology-based approaches through analysis using the Collaborative Evaluation of Semantic Similarity Measures (CESSM) online tool.
Here, we prefer grouping the DO terms using semantic distance in the context of gene annotations.
Research groups can provide and view their own data in the context of UniProtKB annotations and UniParc cross-references through the use of a suitable DAS client.
Summary: ENViz (Enrichment Analysis and Visualization) is a Cytoscape app that performs joint enrichment analysis of two types of sample matched datasets in the context of systematic annotations.
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