Statistics Toolbox for Study: ST002747

Title: Evolutionary genomics identifies host-directed therapeutics to treat intracellular bacterial infections

Select a dataset:

HILIC POSITIVE ION MODE HILIC POSITIVE ION MODE HILIC NEGATIVE ION MODE HILIC NEGATIVE ION MODE Reversed phase POSITIVE ION MODE Reversed phase POSITIVE ION MODE Reversed phase NEGATIVE ION MODE Reversed phase NEGATIVE ION MODE

Run analyses on data in Study ST002747 Dataset: HILIC POSITIVE ION MODE

Metabolite structures and classes (all analyses combined)

• Pie chart of metabolite super classes
• Pie chart of metabolite main classes
• Pie chart of metabolite sub classes
• Molecular structure similarity analysis

Normalization and averaging

• Perform sample normalization / Show metabolite averages / Run cluster analysis
• Perform analyte scaling on data
• Create Relative log abundance plots

Univariate analysis

• Perform multi-condition dot plot analysis
• Perform Volcano plot analysis
• Perform ANOVA analysis

Clustering and correlation

• Perform hierarchial or heatmap cluster analysis
• Perform Clustered correlation analysis
• Perform Network analysis on correlated metabolites (mapped to classification)
• Perform Network analysis on correlated metabolites (mapped to fold-change)

Multivariate analysis

• Perform Principal component analysis
• Perform Linear discriminant analysis
• Perform Partial least-squares discriminant analysis (PLS-DA)

Classification and feature analysis

• Perform OPLS-DA and VIP projection
• Random Forest and VIP projection

MetaBatch Omic Browser (MD Anderson Cancer Center)

(Clustered Heat Maps, PCA+, UMAP, box plot, violin plot, and other visualizations)

• Load this study
• Load this analysis (AN004454)

MetENP: Metabolite enrichment and species-specific pathway annotation

• MetENP R package
• MetENP tutorial

Mapping metabolites to human biochemical pathways

• Map study metabolites to HMDB and KEGG pathways
• Map study metabolites to pathways with ratio/t-test data