I have my own dataset of proteins. I want to use this dataset as a blast database. I know it is possible in offline blast but my question is is if there is any online blast utility where we can upload our own blast database?
Hi Ashmit,
You can use stand alone blast tool where you can use your own database.
http://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download
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BHARAT
Hi Ashmit, you can use Viroblast - it has local as well as online versions where you can use your own database. We use local blast but the following link can be tried. http://bioinfo.unice.fr/blast/viroblast/viroblast.php
No(as far as I known). Use blast standalone version, It;s very easy to use.
Use the "Align" option in the "Specialized BLAST" section on the ncbi website. Make sure your protein sequences (FASTA format) are in one text file. Choose that file as the second "Subject sequence". Also make sure to choose the appropriate blast suite- the "blastp" tab on top (I think the default is set to blastn). The output should give you all hits in your dataset.
Good Luck!
In the standalone version of Blast, you just have to index your databse using "makeblastdb -in " and then "blast -db ".
ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
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