Description: A single-sample classifier that generates Medulloblastoma (MB) subtype predictions for single-samples of human MB patients and model systems, including cell lines and mouse-models. The MM2S algorithm uses a systems-based methodology that facilitates application of the algorithm on samples irrespective of their platform or source of origin. MM2S demonstrates > 96% accuracy for patients of well-characterized normal cerebellum, Wingless (WNT), or Sonic hedgehog (SHH) subtypes, and the less-characterized Group4 (86%) and Group3 (78.2%). MM2S also enables classification of MB cell lines and mouse models into their human counterparts.This package contains function for implementing the classifier onto human data and mouse data, as well as graphical rendering of the results as PCA plots and heatmaps.
|Author||Deena M.A. Gendoo <email@example.com>, Benjamin Haibe-Kains <firstname.lastname@example.org>|
|Date of publication||2016-02-25 00:39:19|
|Maintainer||Deena M.A. Gendoo <email@example.com>|
GTML_Mouse_Preds: Table of Pre-computed MM2S Predictions for 32 replicates of...
Human_Cho_Expr: Gene Expression data from selected samples of the Human CHO...
MM2S.human: MM2S Prediction of Human Medulloblastoma Samples
MM2S.mouse: MM2S Prediction of Mouse Medulloblastoma Samples
MM2Ssetup: MM2S ssGSEA Training Matrix, MB Sample Group information for...
PCARender: PCA Projections of ssGSEA Rank Matrix for Test Samples Onto...
PredictionsBarplot: Stacked Barplot of MM2S Subtype Predictions for Given Samples
PredictionsDistributionBoxplot: Boxplot of MM2S Subtype Predictions for Given Samples
PredictionsDistributionPie: Heatmap of MM2S Subtype Predictions for Given Samples
PredictionsHeatmap: Heatmap of MM2S Subtype Predictions for Given Samples
WNT_Mouse_Expr: Gene Expression data pertaining to the GMTL mouse mode