Human_Cho_Expr

Gene Expression data (formatted and normalized using BrainArray CDFs) for 10 selected samples of the CHO dataset (see references for details).

datasets

A single-sample classifier that generates Medulloblastoma (MB) subtype predictions for single-samples of human Medulloblastoma (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 (Principal Component Analysis) plots and heatmaps. Deena Gendoo and Benjamin Haibe-Kains (2016) <doi:10.1186/s13029-016-0053-y>.

Benjamin HaibeKains

MM2S

Single-Sample Classifier of Medulloblastoma Subtypes for
Medulloblastoma Patient Samples, Mouse Models, and Cell Lines

Human_Cho_Expr function

A data frame with 12129 observations on the following 10 variables.<dl class="dl-horizontal">
 <dt><code>MD_269</code></dt><dd>WNT sample</dd>
 <dt><code>MD_172</code></dt><dd>WNT sample</dd>
 <dt><code>NC_1</code></dt><dd>Normal Cerebellum</dd>
 <dt><code>NC_3</code></dt><dd>Normal Cerebellum</dd>
 <dt><code>MD_151</code></dt><dd>SHH sample</dd>
 <dt><code>MD_153</code></dt><dd>SHH sample</dd>
 <dt><code>MD_268</code></dt><dd>Group4 sample</dd>
 <dt><code>MD_161</code></dt><dd>Group4 sample</dd>
 <dt><code>MD_242</code></dt><dd>Group3 sample</dd>
 <dt><code>MD_75</code></dt><dd>Group3 sample</dd>
 </dl>

Format

Gene Expression data from selected samples of the Human CHO Medulloblastoma dataset — Human_Cho_Expr

A data frame with 12129 observations on the following 10 variables.<dl class='dl-horizontal'>
 <dt><code>MD_269</code></dt><dd>WNT sample</dd>
 <dt><code>MD_172</code></dt><dd>WNT sample</dd>
 <dt><code>NC_1</code></dt><dd>Normal Cerebellum</dd>
 <dt><code>NC_3</code></dt><dd>Normal Cerebellum</dd>
 <dt><code>MD_151</code></dt><dd>SHH sample</dd>
 <dt><code>MD_153</code></dt><dd>SHH sample</dd>
 <dt><code>MD_268</code></dt><dd>Group4 sample</dd>
 <dt><code>MD_161</code></dt><dd>Group4 sample</dd>
 <dt><code>MD_242</code></dt><dd>Group3 sample</dd>
 <dt><code>MD_75</code></dt><dd>Group3 sample</dd>
 </dl>

Human_Cho_Expr: Gene Expression data from selected samples of the Human CHO Medulloblastoma dataset

Description

Usage

Arguments

Format

References

Examples