Question: help with biopython
gravatar for ricordo.yan
4 weeks ago by
ricordo.yan0 wrote:

I am very new to Biopython and need someone to help me out. My problem is the following, I have 100 geneIDs and I want to know their FASTA sequence. For example, I have this gene 2712\tGCA_000750535.1, 2712 is the geneID. What function can I use to solve this problem? Thank you everybody.

sequence • 86 views
ADD COMMENTlink written 4 weeks ago by ricordo.yan0

If it's Entrez Gene ID (human/mouse/other popular organism), you can use the TxDb package to get sequences. biomaRt should have similar provisions. Unfortunately, both of these are in R and not BioPython. Maybe someone else can give you python specific resources.

ADD REPLYlink written 4 weeks ago by RamRS23k

Thank you so much for the help

ADD REPLYlink written 4 weeks ago by ricordo.yan0
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