Question: sequence annotation for gene name or gene symbol
0
gravatar for Kurban
3.4 years ago by
Kurban170
china/Urumqi/xinjiang academy of animal scinces
Kurban170 wrote:

hey guys,

 i have a few rookie questions.

 i have a several hundreds of transcripts which are up regulated in an insect response to low temperature.

 i wanna use DAVID(https://david.ncifcrf.gov/home.jsp) analyse them.

 But when i looked at DAVID, it receives genes in list of their ENTREZ_ID and OFFICIAL_GENE_SYMBOL (i assume gene symbol refers to gene name right?).

 i have annotated those sequences by using blast2go before, but the software gives the sequence's description, not gene name or seq ID.

so what i wanna ask here is how can i get my sequence corresponding ENTREZ ID, gene symbol (name) or any information like that from database like NCBI.

I thought may be i could get those information from blasting my sequences with NCBI nr.fasta data, but when i see that the whole file in NCBI the compressed version of the file is around 14G, then i think i can not do that on laptop, do i?  

could you please give me some tips on those, which could really help me with the downstream analysis of those sequences.

david entrez_id gene name • 1.5k views
ADD COMMENTlink modified 3.4 years ago by Jean-Karim Heriche18k • written 3.4 years ago by Kurban170
0
gravatar for Jean-Karim Heriche
3.4 years ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche18k wrote:

The gene symbol is a short form of the gene name e.g. PLK1 is the gene symbol for human gene name polo-like kinase 1. To convert between identifiers, you can use a BioMart service having your species of interest.

ADD COMMENTlink written 3.4 years ago by Jean-Karim Heriche18k
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