Java Treeview - extensible visualization of microarray data
By Alok J. Saldanha. Bioinform., 2004
3,110 citations recorded by the source corpus.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/cb19024f90d759cad27ca1301311d3c250c62a49
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In Molecular Biology
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- Ruth E. Ley
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Citations in the corpus
- Evidence for a core gut microbiota in the zebrafish (2011, methodology): “The resulting hierarchical tree was drawn using Java TreeView version 1.1.5r2 (Saldanha, 2004).”
- ETE: a python Environment for Tree Exploration (2010, methodology): “…Treeview [2], an application for visualizing microarray clustering results; ATV [3], a java program used to explore phylogenies which provides also some editing options; MEGA [4], an evolutionary genetics analysis suite that includes a built-in tree viewer; and many other recent applications [5-8].”
- clusterMaker: a multi-algorithm clustering plugin for Cytoscape (2011, methodology): “The heat map and tree view implementations were derived from Java TreeView [40], but were significantly modified to interact with the network and to function as embedded methods.”
- Genomic analysis reveals that Pseudomonas aeruginosa virulence is combinatorial (2006, methodology): “Heirarchical clustering analysis of strain relationships was performed using Cluster 3.0 [44] and Java Treeview [ 45 ].”
- ToppCluster: a multiple gene list feature analyzer for comparative enrichment clustering and network-based dissection of biological systems (2010, methodology): “Additionally, we provide the feature of exporting the results for further analysis in various formats, including TreeView cluster trees (13,14), Cytoscape (15) and Gephi (16) compatible networks.”
- Succession of microbial consortia in the developing infant gut microbiome (2010, methodology): “Heat map graphics were generated using JavaTreeView (37).”
- Anatomical profiling of G protein-coupled receptor expression (2008, positive): “, 1998) and visualized with Java TreeView (Saldanha, 2004).”
- Synergistic drug combinations for cancer identified in a CRISPR screen for pairwise genetic interactions (2017, positive): “Generated clusters were displayed using Java TreeView 75 .”