Query

[Lenny Teytelman]

Dear Priya Ranjan:

Indeed, doing each sequence individually is extremely time-consuming.
However, blasting the file with the ESTs against any one of the databases
would only take several hours (more or less depending on the computer).

Is it at all possible for you to install BLAST on your local machine?   
ftp://ncbi.nlm.nih.gov/blast/executables/README.bls provides information
on installing BLAST.  Having done that, you could then download
any of the databases that you wish to use against the ESTs and run
everything locally.

Sincerely,

Lenny Teytelman 

  >
Respected Sir/Madam
>     I have a query and I would be grateful for your help. I have some
> 10000 EST sequences and I want to match EST sequences with the database
> (say nr at NCBI)using blast and give some functional annotation to the
> sequences.
> 
> I can go by following methods
> 1)I can take each sequence. Blast it against nr database and then provide
> the functional annotation based on the blast result. But that would really
> be a time consuming process
> 
> 2) After some literature survey I found out that this may be another
> process.From the 10000 sequences I can remove the redundncy by using the
> staden package or a similar assembler. Then when I have the non redundant
> set I can search it agaianst the database and give functional annotation.
> Still this would take a lot of time (Say there are 2000 non redundant
> sequences)
> 
> 
> I hope I have given the background of the query. I dont know whether you
> did similar type of work but if  you can suggest me some other  ways to
> get the functional annotation for ESTs, I would be very grateful.                                    
> 
> 
> regards
> Priya Ranjan
> 
>