Monday, April 26, 2010

Gene Expression Atlas (GXA)

This database is about 1 year old, and looks really cool.

Gene Expression Atlas:

Download PPT from Array Express/Atlas section of

EBI Roadshow

Several of us are attending the European Bioinformatics Institute (EBI) Roadshow workshop at NWU today and tomorrow.

"European Bioinformatics Institute Roadshows provide hands-on bioinformatics training for scientists.  Using presentations and practical sessions, expert trainers guide participants through web interfaces and key functionalities of a selected set of the extensive databases and tools developed at the EBI, including: Ensembl, BioMart, ArrayExpress, ArrayExpress, Gene Expression Atlas, Reactome."

Here are some useful links:

EMBL-EBI website:

Workshop Presentations:

Friday, April 23, 2010

A bit of wisdom from one of the greats

The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data.

John Tukey

about data analysis

Frank Harrell warns that using the data to guide the data analysis is almost as dangerous as not doing so.

ROC curve and Wilcoxon-Mann-Whitney-Somers-Goodman-Kruskal rank correlation

ROC area (equiv. to Wilcoxon-Mann-Whitney and Somers' Dxy rank 
correlation between pred. P[Y=1] and Y) is a measure of pure 
discrimination, not a measure of accuracy per se.

Chicago R User Group Established

A Chicago R User group has been established recently - it does not appear that they have any meet-ups scheduled yet, though.


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