Genesis: cluster analysis of microarray data

By A. Sturn, John Quackenbush, Zlatko Trajanoski. Bioinform., 2002

1,845 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/2218a933317d8f0c45f4a9dabafc61bdf5700590

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In Molecular Biology

Citations in the corpus

Pan-cancer immunogenomic analyses reveal genotype-immunophenotype relationships and predictors of response to checkpoint blockade (2016, methodology): “Clustering and visualization was done with the software Genesis (Sturn et al., 2002).”
Genome-Wide Analysis of Fatty Acid Desaturases in Soybean (Glycine max) (2011, methodology): “The expression data were gene-wise normalized and hierarchical clustered based on Pearson coefficients with average linkage in the Genesis (version 1.75) program (Sturn et al. 2002).”
Java Treeview - extensible visualization of microarray data (2004, background): “A few examples, include AVA (Zhou and Liu, 2003), TRANSPATH (Krull et al., 2003), Genesis (Sturn et al., 2002) and J-Express (Dysvik and Jonassen, 2001).”
Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder (2016, methodology): “Different expressed genes were clustered by Genesis (36), using a hierarchical clustering method, with ’Complete linkage clustering’ agglomeration parameter in the software.”
A high-fat diet coordinately downregulates genes required for mitochondrial oxidative phosphorylation in skeletal muscle. (2005, methodology): “After normalization, gene shaving (22), bootstrapping (23), and cluster analysis were performed (24), and the slide effect, dye effect, variety effect, and duplicate design were taken into account in an ANOVA model (25).”
BioArray Software Environment (BASE): a platform for comprehensive management and analysis of microarray data (2002, background): “There are a number of separate software systems that individually address some of the needs, such as databases and applications for clustering and visualization of microarray data [11-18], public databases that contain reporter information [19-21], commercial laboratory information management system”
Comparative Analysis of Pyrosequencing and a Phylogenetic Microarray for Exploring Microbial Community Structures in the Human Distal Intestine (2009, positive): “This was in turn compared with a heat map generated by Genesis [66] from pyrosequencing data, which was based on complete-linkage clustering of Euclidian distances from the numbers of genera RDP-classified with at least 50% bootstrap support.”
Ribosome assembly in eukaryotes. (2003, methodology): “This matrix was imported in the Genesis software (Sturn et al., 2002) and a hierarchical clustering algorithm with average”