Go Back   SEQanswers > Bioinformatics > Bioinformatics

Similar Threads
Thread Thread Starter Forum Replies Last Post
DESEQ2: How to use dispersion estimated from one dataset in another dataset EVELE Bioinformatics 3 07-01-2015 09:09 AM

Thread Tools
Old 01-21-2019, 09:21 PM   #1
Junior Member
Location: Germany

Join Date: Jan 2018
Posts: 8
Default Trouble with Cyclin D3 in the Golub dataset

Dear ALL,

Many of you will be aware of the Golub et al data, one of the first
high-throughput gene expression datasets ever, used for teaching
in many places. I recently noticed that for one of the genes,
the expression pattern in their famous figure does not seem
to match the underlying data (as they are available via the
R package, and described in Wim Krijnen's wonderful book
"Applied Statistics for Bioinformatics using R".) But maybe
I'm just missing or misunderstanding something.

From the Figure of the original publication, it is clear that
expression values of Cyclin D3 for AML are mostly below 0, cf. the forth row in

However, inspecting the data, and concordant with e.g. Figure 2.4 of the book,
"Boxplot of ALL and AML expression values of gene CCND3 Cyclin D3",
it is clear that for AML, expression values of Cyclin D3 are above 0.

I checked that there is only one Cyclin D3 in the dataset; I'm not sure
about the possibility that the data were normalized differently; I checked
some other genes, and I found no such problem for any other gene, so
I'm not sure that it's a normalization issue.

Can anyone help and shed some light on this issue?
fuellen is offline   Reply With Quote

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 04:45 PM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO