how to perform gene ontology on genomic data?
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13 months ago
Neel ▴ 20

Hi, i have genome file and i want to do functional enrichment analysis or GO but i don't know how to do it. i had check GO FEAT for GO analysis but i am unable to install it in my system. Does anyone know how to prepare input i.e. gene list from genome for further gene ontology analysis.

Thank you!

GO • 855 views
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You need to clarify what you mean by "genome file".

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Hi, i mean, i have genome sequences and i want to perform GO analysis on that genome sequences.

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If all you have are some sequences then you'll need to start by annotating them. Since you mention GO FEAT I think this is what you're trying to do but you need to be clearer/more precise about what data you have (e.g. which format, which species...) and what you're trying to do (annotate sequences or doing enrichment analysis and if so what are you comparing for the enrichment?). Also GO FEAT is web-based so you don't need to install it, just use the web interface.

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Hi Jean, actually i have 200 e.coli genome sequences in .fna format and i did annotation but i want to know how to do pathway enrichment analysis and i want to identify classes of genes or proteins that are over-represented in a large set of genes or proteins, and may have an association with disease phenotypes. And in case of GO FEAT why i wanna install because i have large datasets and i think web based one take only one sew at a time. please help me, i am stuck in it and i am unable to figure out.

Thank you for your time and reply.

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