Question: How To Convert Refseq Potein To Corresponding Fasta File Automatically?
0
gravatar for April
8.2 years ago by
April0
Philadelphia
April0 wrote:

Hi,

I am a beginner of bioinformatic, and I am working on a project which needs to convert the Reseq Protein ID to its FASTA file. Since I have a list of genes, it is really a pain to find each of them on NCBI protein manually. Thus I wonder is there a way find the FASTA file automatically, maybe through some help of web server? Thanks very much.

fasta refseq • 2.5k views
ADD COMMENTlink written 8.2 years ago by April0
0
gravatar for Chris
8.2 years ago by
Chris1.6k
Munich
Chris1.6k wrote:

This thread may give you some insights how to do it in Python.

ADD COMMENTlink modified 8 months ago by RamRS27k • written 8.2 years ago by Chris1.6k

Thanks very much. I did look at that before I asked the question, however I have no idea about Python. Anyway, I find this http://www.ncbi.nlm.nih.gov/sites/batchentrez and it really helps me without Python.

ADD REPLYlink written 8.2 years ago by April0
0
gravatar for Niek De Klein
8.2 years ago by
Niek De Klein2.5k
Netherlands
Niek De Klein2.5k wrote:

Depending on how many Refseq Protein Id's you have you can put a list of them in the NCBI protein search box. Seperate them by a comma (like this: F56A4.1, F55G11.9). You can then just download the fasta files. If there is a huge amount and you want to use the sequences I would advice reading this urllib2 tutorial to automatically retrieve information from the internet.

ADD COMMENTlink modified 8.2 years ago • written 8.2 years ago by Niek De Klein2.5k

Thank you very much. It seems necessary for me to learn Python. And for this case, I find I can solve it through this: http://www.ncbi.nlm.nih.gov/sites/batchentrez

ADD REPLYlink written 8.2 years ago by April0
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: 847 users visited in the last hour