Annotate Protein List with COG / E.coli COG table

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7.7 years ago

Benni ▴ 30

I have a protein list of escherichia coli. I want to annotate this list with the COG terms. Is there an online tool for that or is there a way to get a annotated gene/protein list for e.coli? I don´t want to run a sequence blast, since there should be already a database for e.coli proteins?

COG • 3.5k views

ADD COMMENT • link 7.7 years ago by Benni ▴ 30

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See if EcoCyc : https://ecocyc.org/ is of help or look on the latest COG page: ftp://ftp.ncbi.nih.gov/pub/COG/COG2014/static/lists/homeCOGs.html specifically: ftp://ftp.ncbi.nih.gov/pub/COG/COG2014/static/lists/listEsccol.html

ADD REPLY • link 7.7 years ago by GenoMax 147k

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EcoCyc doesn´t support COG annotation. How do I get the table in .csv and not .html?

ADD REPLY • link 7.7 years ago by Benni ▴ 30

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Copy paste the contents from the E coli COG page (I assume that is the one you are interested in) into a new file?

ADD REPLY • link 7.7 years ago by GenoMax 147k

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