RNASeq experiments with 2 conditions and more than 3 replicates

Jouneau Luc · 04-04-2011, 11:18 AM

Hello,

For statistical study, we would like to generate simulated data, based on Binomial negative distribution. To properly estimate distribution parameters, we are looking for a public dataset studying two conditions (control vs treated), with more than 3 replicates in each condition.
I know there we can find such experiments on SRA NCBI website, but we would like to avoid mapping steps (and SRA provides only reads and not counts).
Typically, we are looking for a publicly available RNASeq experiment with as many replicates as possible and proposing results as a simple table of raw counts (samples in column, features in line).

Does anyone know where we could find such kind of table ?

Thanks in advance for your help.
Luc

steven · 04-05-2011, 04:00 AM

I am also interested in such a table of read counts. In my case, 3 replicates per biological group are enough, and BAM files are fine too.
Thanks!

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04-04-2011, 11:18 AM	#1
Jouneau Luc Junior Member Location: Paris Join Date: Apr 2011 Posts: 2	RNASeq experiments with 2 conditions and more than 3 replicates Hello, For statistical study, we would like to generate simulated data, based on Binomial negative distribution. To properly estimate distribution parameters, we are looking for a public dataset studying two conditions (control vs treated), with more than 3 replicates in each condition. I know there we can find such experiments on SRA NCBI website, but we would like to avoid mapping steps (and SRA provides only reads and not counts). Typically, we are looking for a publicly available RNASeq experiment with as many replicates as possible and proposing results as a simple table of raw counts (samples in column, features in line). Does anyone know where we could find such kind of table ? Thanks in advance for your help. Luc

04-05-2011, 04:00 AM	#2
steven Senior Member Location: Southern France Join Date: Aug 2009 Posts: 269	bump I am also interested in such a table of read counts. In my case, 3 replicates per biological group are enough, and BAM files are fine too. Thanks!