A range of applications have been developed to allow interactive exploration and analytics of large omics datasets.
KinasePA: Enables analysis of kinase perturbation experiments.
ClueR: Use of prior knowledge to cluster time series proteomics data.
PACMEN: A tool for exploring the relationships between mutations and gene expression changes in protein interaction subnetworks for 19 tissues analysed by TCGA.
R function to produce your own PACMEN input found here!
QPEP: A benchmarking scoreboard and visual analytics tools for methods which affect proteomics quantitation.
MelanomaExplorer: Enables customised classification, scatterplots of pairs of variables, network visualisations, and survival analysis for a variety of publicly available melanoma datasets.