Question: Gene id to gene name mapping
0
gravatar for RT
4.7 years ago by
RT350
European Union
RT350 wrote:

Hi All,

Can anyone suggest a way to extract gene Id to gene names mapping for A. thaliana.

Thanks, RT

gene id gene name • 2.2k views
ADD COMMENTlink written 4.7 years ago by RT350

Do you mean to extract the gene IDs corresponding to a set of gene names?

ADD REPLYlink written 4.7 years ago by iraun3.8k

I need it for all the A thaliana genes. For example,


Geneid | Genename |

AT4G21690.1 | GA3OX3 |

ADD REPLYlink written 4.7 years ago by RT350
1

You can use BioMart. Just give as input a list of arabidopsis gene IDs or gene names, and for the output you can select "Gene stable ID" and "Gene name" attributes. Is this what are you looking for?

ADD REPLYlink modified 4.7 years ago • written 4.7 years ago by iraun3.8k

If you're working in R, you can use BioMartR. We have been very successful with it. However, there are a few times when the service (on the BioMart end) might be running slow or be unavailable, so make sure to account for that vs. thinking your R script has an error.

ADD REPLYlink written 4.7 years ago by JP10
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