Question: EST or EST cluster to use?
0
gravatar for The Last Word
4.0 years ago by
The Last Word170
India
The Last Word170 wrote:

Dear sir,

I have EST as well as EST cluster data for the prediction of miRNAs in a particular genome. The EST sequences roughly come upto 170 MB while the EST cluster file is just 6 MB. I would normally use the cluster file but this big a difference in the size of sequences honestly is surprising to me. I have got a methodology planned out so could you please suggest as to which file I should use for the miRNA analysis.

Thanks in advance. 

mirna est • 951 views
ADD COMMENTlink modified 4.0 years ago • written 4.0 years ago by The Last Word170

Not sure how we can answer your question since we have no real way of evaluating the quality of your data or the impact it will have on your downstream analysis.  Practically, why not try things with each individually and compare results?

ADD REPLYlink written 4.0 years ago by Sean Davis25k

@Sean Davis Does it make sense of such a big difference in sequence size between the EST and the EST clusters? Btw, this is the link to the data I would be using 

 

ADD REPLYlink written 4.0 years ago by The Last Word170

It might make sense to have such a big difference if your EST library is pretty redundant.  Have you examined the differences between the EST and EST clusters?  That would be the place to start.  I wouldn't spend too much time thinking about file sizes.

ADD REPLYlink written 4.0 years ago by Sean Davis25k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1940 users visited in the last hour