Comparion of results to publicly available databases

Question

[agata88]

Hi all,

I was looking for a set of data that I can compare to my patient results of 16S metagenomic analysis.

What I would like to have as a result is a chart that shows that for example a set of 20 healthy patients have a 50 % percent of reads assigned to bacteria A and in patient results this bacteria occur in 20%.

But I am missing the results for healthy set of patients. I know there is NIH Microbiome Project with healthy data but I am really confused which one I should download.

For the record I am working on gut microbiome - so I would like to have a comparison for gut results.

I would really appreciate for any help.

I was looking for data for few days and I am really resigned.

Best,

Agata

Answer 1

[GenoMax]

Science just published these two papers from which you may be able to get some "normal" data: http://science.sciencemag.org/content/352/6285/560 and http://science.sciencemag.org/content/352/6285/565

Answer 2

[Charles Warden]

You can download 16S data from the ENA or SRA.

For example, here are samples from the American Gut project:

http://www.ebi.ac.uk/ena/data/view/ERP012803

[agata88]

Thank you, I cannot find European gut project. Could you help me with that?