Different gen identifiers with the same gene name [HTA 2.0 microarrays]

Question

[Hamtaro]

Hello everybody.

This is the first time I use HTA 2.0 expression microarrays. I tried to looking for something on internet about this, but I haven't found anything.

After annotation of the transcript clusters I added the gene symbol (SYMBOL) and a short description of the gene the cluster represents (GENENAME) and extra information (Locustype etc.). In a second step, I filtered out the probes that do not map to a gene, i.e. that do not have a gene symbol assigned.

Is it normal that a gene with a different ID has the same gene name? Do I filter and keep those that are not duplicated?

I have contacted affimetrix but they have totally ignored me.

Thank you in advance

[fracarb8]

aren't those ID isoforms of the same genes?

[Hamtaro]

How can I know that?

[JC]

that table shows Gene class/type as Gene name, definitively that is not the name

[Hamtaro]

Yes. But that is how the HTA 2.0 database shows. :/

[JC]

You can get the real gene name searching the ID (Havana OTTHUMT) or the gene symbol.

Answer 1

[zhouv2017]

hi, my brother! How did you add gene sybol to the data frame. hope to receive your expaination! thank you very much

[zhouv2017]

i have installed "HTA 2.0" package，but i dont know how to use it, do you have any Manual or code for it

[Hamtaro]

Hi. I just saw your comment. Did you find a solution? I can copy my script if you wish.