Ortholog Protein Finding Tool
3
2
Entering edit mode
9.0 years ago
rezwan.02 ▴ 40

what is the best way to find ortholog protein in other bacterial strains ?

protein • 4.5k views
ADD COMMENT
0
Entering edit mode

you can use orthofinder, which is easy to run and produces many useful comparative genomics results as well as phylogenetic trees inculuding species tree and ortholog trees.

here is the link

ADD REPLY
4
Entering edit mode
9.0 years ago

The best way to find orthologs is to read some posts that have already discussed a similar problem and do some reading.

A few of the posts on Biostars that discuss the same are:

What is the best method to find orthologous genes of a species?

Ortholog Detection tool

Finding the orthologs in the genome

ADD COMMENT
0
Entering edit mode
9.0 years ago
always_learning ★ 1.1k

Simplest way is to do a bi directional blast !!

ADD COMMENT
0
Entering edit mode
18 months ago
szymon • 0

My group prepared a very nice tool based on KEGG ( see https://dariusz-izak-doktorat.github.io/ )

ADD COMMENT
0
Entering edit mode

When I pressed the link, I received 404-error - no requested file.

ADD REPLY
0
Entering edit mode
ADD REPLY
0
Entering edit mode

With all due respect, while this could be useful, that website is so messy and looks unprofessional, I would not invest effort in going through it. Strongly recommend a makeover if this is really a working solution.

ADD REPLY
0
Entering edit mode

Dear Sir! I tried to enter — I received 404-error — no requested file. Natasha Sernova

ADD REPLY
0
Entering edit mode

Sorry about it. It should be https://dariusz-izak-doktorat.github.io/

ADD REPLY

Login before adding your answer.

Traffic: 1009 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6