Answers.Body: <p>In the <a href="http://cancerres.aacrjournals.org/content/72/14/3499.full" rel="nofollow noreferrer">article</a> describing Cellminer says about the cross-correlations:</p>
  
  <blockquote>
    <p>... a cross-correlation table of the resultant z-scores can be
    generated ...</p>
  </blockquote>
  
  <p>On page 3503</p>
  
  <p>And the z-scores are defined previously as:</p>
  
  <blockquote>
    <p>The tool output includes relative transcript intensity presented
    as z-scores...</p>
  </blockquote>
  
Answers.ContentLicense: CC BY-SA 3.0
Answers.CreationDate: 2017-06-20T08:34:17.377Z
Answers.LastActivityDate: 2017-06-20T08:34:17.377Z
Answers.UserDisplayName: llrs
Body: <p>I have seen one of <a href="https://discover.nci.nih.gov/cellminer/" rel="nofollow noreferrer">Cellminer tools</a>. I am not sure how do they calculate the cross correlation of the genes, what does it actually mean? Based on what databases? </p>
  
  <p>For example if I take their example input (<a href="http://www.genenames.org/" rel="nofollow noreferrer">HUGO</a> format): </p>
  
  <pre><code>abcb1
  BRCA2
  CNBP
  </code></pre>
  
  <p>I get the following cross correlation matrix (based on what signals).</p>
  
  <pre><code>Identifier      abcb1   BRCA2   CNBP
  abcb1           1      -0.142   0.069
  BRCA2          -0.142   1       0.176
  CNBP           0.069    0.176   1
  </code></pre>
  
Comments.ContentLicense: CC BY-SA 3.0
Comments.CreationDate: 2017-08-18T09:00:31.037Z
Comments.Text: You're probably best asking the authors
Comments.UserDisplayName: ithinkiam
Tags: <r><gene>
Title: How does Cellminer's "Cross-correlations of transcripts, drugs, and microRNAs" work
ThreadText: # How does Cellminer's "Cross-correlations of transcripts, drugs, and microRNAs" work
  
  (Asked by: username_0 on 2017-06-10)
  
  I have seen one of [Cellminer tools](https://discover.nci.nih.gov/cellminer/). I am not sure how do they calculate the cross correlation of the genes, what does it actually mean? Based on what databases?
  
  For example if I take their example input ([HUGO](http://www.genenames.org/) format):
  
  ```
  abcb1
  BRCA2
  CNBP
  
  ```
  
  I get the following cross correlation matrix (based on what signals).
  
  ```
  Identifier      abcb1   BRCA2   CNBP
  abcb1           1      -0.142   0.069
  BRCA2          -0.142   1       0.176
  CNBP           0.069    0.176   1
  
  ```
  
  **Tags:** r, gene
  
  > **Comments:**
  > **username_1**: You're probably best asking the authors  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_2 on 2017-06-20. Score: 2 | Accepted answer
  
  In the [article](http://cancerres.aacrjournals.org/content/72/14/3499.full) describing Cellminer says about the cross-correlations:
  
  > ... a cross-correlation table of the resultant z-scores can be
  > generated ...
  
  On page 3503
  
  And the z-scores are defined previously as:
  
  > The tool output includes relative transcript intensity presented
  > as z-scores...
  
  
  ---
  
  