K-Pro Capabilities

Available data on K

MOSAIC Dataset: 8 cancer indications with clinical data, histomics, bulk RNA-seq, whole-exome sequencing, single-cell RNA-seq, and spatial transcriptomics

TCGA Dataset: 33 cancer indications with clinical data, histomics, and bulk RNA-seq (no single-cell or spatial data)

K is able to ingest new datasets, with some manual curation required.

Analysis capabilities

Analyses are performed on the fly and consists of a statistical analysis, a plot, a demographic description of the population, and a text-based summary.

When relevant, K can perform complexe groupings according to the user request (e.g group patients according to high or low overall survival, or by high versus low fibroblast count on the H&E sample).

Survival Analysis	Clinical data	Kaplan-Meier curves
Cohort Characterisation	Clinical data	KM curves Bar plots Tables	Performed for all analyses to give context
Treatment Trajectories	Clinical data	Sankey diagrams
Differential Expression Analysis	Bulk RNA-seq Single-cell RNA-seq	Volcano plot	Covariate adjustment is possible
Comparing gene signatures across multiple groups	Bulk RNA-seq Single-cell RNA-seq Spatial transcriptomics	Heatmap & violin plot (bk) Dot plot (sc, spt)	Can be one or multiple genes
Cell Type Analysis	Single-cell RNA-seq Spatial transcriptomics H&E	Bar plot Stacked bar plot Boxplot	Information can be first aggregated at the patient level to compare patient-level subgroups, or can be done at the cell or spot level
Co-expression/Colocalization Analysis	Bulk RNA-seq Single-cell RNA-seq Spatial transcriptomics	Heatmap Dotplot	Looking at expression or presence absence. Localisation for the spatial plots
Latent Representation	Bulk RNA-seq Single-cell RNA-seq	Scatter plot in UMAP coordinates	Can be colored by gene expression, signature score or any metadata feature (e.g cell type or age)
Spatial Deep Dive	Spatial transcriptomics	tissue-level representation	Can be colored by gene expression, signature score or any metadata feature (e.g dominant cell type or age)

More information on the available plots can be found here.