Need help to get a DEseq or EdgeR example file

neetu

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Join Date: Oct 2011

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Need help to get a DEseq or EdgeR example file

12-02-2013, 08:13 AM

Hi,
I am a novice in RNA-seq data analysis.

I need a list of DEG from RNA-seq data. I need to test this list against some new workflows developed inhouse. Can anyone suggest how i can get such a list.

I tried GEO website and uploaded the files from the GSE44674 dataset.

GSE44674_DESeq_normalised_matrix_file_all_55_samples.txt.gz and
GSE44674_TKT-TMM-EDGER-NORM-55-SAMPLES.txt.gz

I presumed that since these are output files from EDGER and DEseq, they should have a list of DEG with p-values and log fold change.

On the contrary these files have columns for GO accession and columns for all 55 samples with values.

How can i find a list of DEG analyzed from RNA-seq data?
Any help in this direction will be very helpful.

Thanks and Regards,
Neetu
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