Annotate list of Ensembl genes
I have a list of human genes and I would like to annotate them (e.g. GTeX, ClinVar, GWAS Catalog).
I have their Ensembl IDs: e.g. ENSG00000165916.8
Is there an open source package or online tool I can use to return a table of helpful annotations?
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Laura Luebbert •
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LayneSadler
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LayneSadler
1 answer
You can use gget info:
Terminal:
pip install gget
gget info ENSG00000165916.8
Python environment:
!pip install gget
import gget
gget.info("ENSG00000165916.8")
This will return extensive information including transcripts and descriptions curated from several databases including Ensembl, UniProt, and NCBI.
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Laura Luebbert •
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You asked numerous question on this site without validating any answer. Please take a few minutes to validate (green mark on the left) and close the good answers.
How am I expected to know what the right answer is? This isn't like code where if it runs and it's simple, then it is the answer. I get how that works: https://stackoverflow.com/users/5739514/kermit The system is broken
well for example, you could validate Genomax's answer What are GL*.* values in chr column of rna seq counts? , my answer VCF - what are overlapping variants? , etc.. , etc..