Instructions
The type of query performed on CELLX is determined by the pulldown menu underneath the Pfizer Icon.
The types of queries are:
CNV
[target] : Search for CNV alterations.
[CNV-barplot] : Plot each CNV dataset in a barchart and stripchart.
[cnv_exp] : Find genes with cnv that have statistically different expression of the selected gene.
Expression
[expression_list] : expression table for named genes and heatmap.
[RSEM-barplot] : Plot each RSEM expression dataset in a barchart, stripchart, and histogram.
[expression_stat] : Find which genes are statistically different between groups defined by expression cutoffs.
[expression_cor] : Find which genes are correlated with the selected gene(s).
[expression_plot] : 2D scatter plot of molecular features.
[expression_mut] : Find which genes are statistically different between groups defined by mutation status.
[expression_cnv] : Find which genes are statistically different between groups defined by cnv status.
[expression_IC50] : Find genes correlated or enriched between groups defined by IC50 cutoffs.
[expression_meta] : Find genes correlated or enriched between groups defined by meta data.
[expression_mirna] : Find which genes are statistically different between groups defined by mirna status.
[expression_exon]
[pca_plot] : PCA plot whole expression data *dev
Mutation
[fisher_mutation]
[meta_mutation] : Fisher test for mutation status and metadata
[mutation_exp] : Find genes with mutations that have statistically different expression of the selected gene.
[mutation_table] : create table of mutations.
[mutation_report] : Database wide survey of mutations in a gene.
[mutation_count]
[mirna_mut] : Find miRNAs that are statistically different between groups defined by mutation status.
Other
[sample_report] : List cnv and mutations present for a given sample.
[sample_search] : Search for sample names in the database.
[marker_report] : Count samples that meet the criteria for positive or negative sets of putative biomarkers.
[mirna_barplot]
[survival] : Plot survival plots (TCGA only)
[meta_heatmap]
[meta_search]
[matrix] : Output expression, CNV, and mutations in table format.
[gene_loci]
[tabledump]
[venn] : Create venn diagrams based on molecular features.
[combinations] : Find genes correlated or enriched between groups defined by combination scores.
[methyl_mut]
[meta_fisher] : Fisher test of two meta categorical fields.
[snp] : Test SNPs vs. expression levels
[slide_tab]: Show associated slide images
Wiki: CNV-barplot
Wiki: Home
Wiki: Metadata
Wiki: RSEM-barplot
Wiki: cnv_exp
Wiki: combinations
Wiki: expression_IC50
Wiki: expression_cnv
Wiki: expression_cor
Wiki: expression_exon
Wiki: expression_list
Wiki: expression_meta
Wiki: expression_mirna
Wiki: expression_mut
Wiki: expression_plot
Wiki: expression_stat
Wiki: fisher_mutation
Wiki: fisher_mutation_meta
Wiki: gene_loci
Wiki: marker_report
Wiki: matrix
Wiki: meta_fisher
Wiki: meta_heatmap
Wiki: meta_mutation
Wiki: meta_search
Wiki: methyl_mut
Wiki: mirna_barplot
Wiki: mirna_mut
Wiki: mutation_count
Wiki: mutation_exp
Wiki: mutation_report
Wiki: mutation_table
Wiki: pca_plot
Wiki: sample_report
Wiki: sample_search
Wiki: slide_tab
Wiki: snp
Wiki: survival
Wiki: tabledump
Wiki: target
Wiki: venn