Question: Find out if a protein has an ortholog in EggNog DB
0
gravatar for peter pfand
4.7 years ago by
peter pfand100
Germany
peter pfand100 wrote:

Hi,

I have a list of human genes for which I want to check whether there are orthologs in Bacteria. For this purpose, I've decided to make use of the EggNog DB, but when I see the files I get lost. Could anyone tell me how to check if an ortholog group in human or a given human protein is in an ortholog group of bacteria?

Are the protein names in EggNog in different formats?

human eggnog orthologs • 1.4k views
ADD COMMENTlink modified 2.6 years ago by urema0 • written 4.7 years ago by peter pfand100

Did you figure this out?

ADD REPLYlink written 2.6 years ago by urema0
0
gravatar for urema
2.6 years ago by
urema0
urema0 wrote:

Hi,

Seen your post and I was wondering if you ever figured this out?

I am attempting to use eggNOG and its methods offline to extract orthologous proteins etc. However it seems as though no-one wants to participate in problem-solving !

If you want we can discuss this stuff, as I know how to work with eggNOG through its online interface, yet have trouble attempting to replicate its HMM creation etc.

Thanks, U.

ADD COMMENTlink written 2.6 years ago by urema0

Hi urema, no, I did not. I sent an email to the first author off the eggNOG paper but he never replied... so I took an alternative approach.

ADD REPLYlink written 2.5 years ago by peter pfand100
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