At the recent Plant and Animal Genomes conference I learned about an interesting project that could provide underpinning for FAANG:
The STATegra Initiative Develops Novel Methodologies for the Integrative Analysis of Multiple Types of NGS & Omics Data (https://pag.confex.com/pag/xxiii/webprogram/Paper15749.html)
* Experimental design in integrative multiomics experiments
* Data fusion methods to analyze the relative information content of different omics
* Machine learning methods to dissect RNA regulatory programmes.
* Integrative Pathway-based approaches to leverage gene expression, metabolomics and proteomics data for pathway analysis.
* The STATegraEMS, an Experiment Management System for storage and annotation of complex omics experiments.
* These methodologies will be made available to the community through the STATegRa R package and other user-friendly software tools.
The STATegra NGS Experiment Management System
(https://pag.confex.com/pag/xxiii/webprogram/Paper15776.html)
For me the interesting bits are:
1) Experimental design guidelines
As different omics experiments have different properties, different amounts of data have to be generated to achieve the same statistical power.
2) Experiment Management System. Guidelines of how much data
The project is STATegra
It was a pleasure to talk to you at PAG. My apologies for this late reply, I keep on travelling and being delayed in my email managing.
I would love to participate in this initiative. One of my passions is to bring the knowledge gathered in model organisms to the agrogenomics world and yes, we have learnt a lot on data production and processing through the STATegra project. I will be delighted to present this to the consortium. Unfortunatelly, I cannot share the STATegra slides at this point as the on going work of many partners is involved. But I would be happy to offer you a Skype conference or participate in any of your meetings.
Best regards
Ana
2015-01-22 23:14 GMT-05:00 Brauning, Rudiger :
Hi Ana,
It was a pleasure talking to you last Wednesday at PAG.
I mentioned the Functional Annotation of Animal Genomes (FAANG) project.
FAANG is at the initial setup phase. FAANG aims to:
- Standardize core assays and experimental protocols
- Coordinate and facilitate data sharing
- Establish an infrastructure for analysis of these data
- Provide high quality functional annotation of animal genomes
It looked to me like STATegra could provide underpinning for FAANG. FAANG should e.g. use what you've learned in terms of creating omics datasets that have enough power.
You might be interested in getting involved with your STATegra hat on and/or representing your own lab and its valuable tools.
FAANG does have a website, http://faang.org , providing more info and the option to join the group. However at the moment this website seems a little broken. I did let their webmaster know. There's also a twitter presence: https://twitter.com/faangomics
I'm happy to facilitate (e.g. introduce STATegra to the FAANG group) if you are interested. Are your PAG slides available somewhere?
Best regards,
Rudiger
by Rudiger Brauning [ Rudiger.Brauning@agresearch.co.nz ] |
Rudiger Brauning posted at 04:02:33 PM on 2015-01-29
STATegra Initiative
