Question: Comparison of protein sequence similarity
gravatar for dianadas27
5.2 years ago by
dianadas270 wrote:


I am new to ipython and biopython and I have a question regarding comparison of proteins based on their location and similarity.The question is as follows

- create a plot based on proteins, their location and their similarity. Please iterate over your genome, extract the protein sequences from NC_019495.1 and NC_019491.1 and compare them with each other and create a scatterplot.

How can I extract proteins from the genome sequence.Could you suggest me the code to extract it.also to compare the similarities.I tried Biopython pairwise2 module but not working.


Could anyone please give suggestions!!

protein sequence • 1.6k views
ADD COMMENTlink written 5.2 years ago by dianadas270

Like most here I'm pleased to support the less experienced.  Nontherless, I'm not sure this forum is place for student assignment questions,  NOBA those assigning the questions should include pointers to appropriate resources ?

ADD REPLYlink written 5.2 years ago by cdsouthan1.8k

Is this a homework question?

ADD REPLYlink written 5.2 years ago by Devon Ryan92k

Yes this is a homework question and I have been trying but not able to get through it

ADD REPLYlink written 5.2 years ago by dianadas270

OK, we generally try to titrate how much advice we give in cases like this.

Regarding getting the protein sequences, I'll give you a hint that you can find a file saying where all of the proteins in these viruses are (try just googling the accession)...

ADD REPLYlink written 5.2 years ago by Devon Ryan92k
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