... | ... | @@ -6,22 +6,22 @@ Start with the "Data Matrix" and the "Gene Modules". Then load "Symbolic Name Ma |
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240 modules of yeast expression data. Hierarchical sub-clustering for both genes and conditions.
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* [hughratcur_nan_filtered][data]: expression data matrix
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* [hughratcur_nan_filtered_geneTree.xml][genes]: Gene tree, linking genes to modules and organizing them into a tree structure
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* [hughratcur_nan_filtered_conditionTree.xml][conditions]: Condition tree, linking conditions to modules and organizing them into a tree structure
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* [hughratcur_nan_filtered_regulatorTree.xml][regulators]: Regulator tree, linking regulators to modules and organizing them into a tree structure
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* [Annotations.mvf][annotations]: Integrated data (core genes, GO annotations, gene-gene interactions, ...)
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* [hughratcur_nan_filtered][hr_data]: expression data matrix
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* [hughratcur_nan_filtered_geneTree.xml][hr_genes]: Gene tree, linking genes to modules and organizing them into a tree structure
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* [hughratcur_nan_filtered_conditionTree.xml][hr_conditions]: Condition tree, linking conditions to modules and organizing them into a tree structure
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* [hughratcur_nan_filtered_regulatorTree.xml][hr_regulators]: Regulator tree, linking regulators to modules and organizing them into a tree structure
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* [Annotations.mvf][hr_annotations]: Integrated data (core genes, GO annotations, gene-gene interactions, ...)
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[Java Webstart with pre-loaded data](http://bioinformatics.psb.ugent.be/webtools/moduleviewer/launch.jnlp?expmatrix=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered&modules=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_geneTree.xml&conditions=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_conditionTree.xml®ulators=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_regulatorTree.xml&annotations=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/Annotations.mvf)
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[new_session]: http://bioinformatics.psb.ugent.be/webtools/moduleviewer/launch.jnlp
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[data]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered>
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[genes]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_geneTree.xml>
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[conditions]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_conditionTree.xml>
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[regulators]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_regulatorTree.xml>
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[annotations]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/Annotations.mvf>
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[hr_data]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered>
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[hr_genes]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_geneTree.xml>
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[hr_conditions]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_conditionTree.xml>
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[hr_regulators]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/hughratcur_nan_filtered_regulatorTree.xml>
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[hr_annotations]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/hughratcur/Annotations.mvf>
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## Abiotic stress in Arabidopsis Thaliana
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... | ... | @@ -31,17 +31,17 @@ Vermeirssen, V., De Clercq, I., Van Parys, T., Van Breusegem, F., Van de Peer, Y |
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[paper]: http://bioinformatics.psb.ugent.be/supplementary_data/vamei/module_display/
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* [ATH1stress_expr][data]: expression data matrix
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* [kmclust600_2014][genes]: List of genes ordered into 600 modules
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* [kmclust600_2014_reg][regulators]: predicted regulator for each module
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* [ath_symbol_2013][symbols]: gene ID to symbolic name mapping for Arabidopsis
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* [annotations][]: Integrated data (GO annotations, gene-gene interactions, known regulators, ...)
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* [ATH1stress_expr][ath_data]: expression data matrix
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* [kmclust600_2014][ath_genes]: List of genes ordered into 600 modules
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* [kmclust600_2014_reg][ath_regulators]: predicted regulator for each module
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* [ath_symbol_2013][ath_symbols]: gene ID to symbolic name mapping for Arabidopsis
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* [annotations][ath_annotations]: Integrated data (GO annotations, gene-gene interactions, known regulators, ...)
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[Java Webstart with pre-loaded data](http://bioinformatics.psb.ugent.be/webtools/moduleviewer/launch.jnlp?expmatrix=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ATH1stress_expr&modules=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014®ulators=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014_reg&annotations=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/annotations.mvf&synonyms=http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ath_symbol_2013)
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[data]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ATH1stress_expr>
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[genes]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014>
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[regulators]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014_reg>
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[symbols]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ath_symbol_2013>
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[annotations]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/annotations.mvf> |
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[ath_data]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ATH1stress_expr>
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[ath_genes]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014>
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[ath_regulators]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/kmclust600_2014_reg>
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[ath_symbols]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/ath_symbol_2013>
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[ath_annotations]: <http://bioinformatics.psb.ugent.be/webtools/moduleviewer/testdata/abiotic_stress/annotations.mvf> |