MicroRNA Expression Profiles Classify Human Cancers
Nature
435, 834-838, June 9th, 2005


Frequently Asked Questions


Thank you for your interest in our work!
This page contains answers to frequently asked questions on the above referenced paper.
This page is constantly being updated.

NOTE: Supplementary files on Nature website are from an earlier version.
Please refer to this website for the most updated information.


[Questions]                              [Answers]                          [Update Logs]

Questions

    1. Where can I find the expression data?
    2. What are the formats of the expression data?
    3. I want to run the same analyses as described in the paper. How can I do it?

Answers

    1. Where can I find the expression data?
          Expression data are available at two locations.
          MicroRNA expression data have been depositted into GEO (http://www.ncbi.nlm.nih.gov/geo/), with a serial accession number of  GSE2564.
          MicroRNA and mRNA expression data are also available at Broad Institute cancer program website (http://www.broad.mit.edu/cancer/pub/miGCM).

    2.  What are the formats of the expression data?
          Expression data at the Broad cancer website is in the gct format. This is a tab-delimitted text file format. For a detailed explanation of this file format, please refer to the GenePattern tutorial (at http://www.broad.mit.edu/cancer/software/genepattern/tutorial/gp_tutorial_fileformats.html)

    3.  I want to run the same analyses as described in the paper. How can I do it?
          We generated GenePattern modules and pipelines that reproduce the results presented in the paper. In order to run these pipelines please perform the following steps:
       
    If you have problems installing or running the software, please contact gp-help@broad.mit.edu.

Update Logs

    05/10/2005, created, by Jun Lu
    06/08/2005, modified, by Jun Lu
    06/17/2005, added GenePattern modules in Q3, by Gad Getz