[biomart-users] biomarRt

classic Classic list List threaded Threaded
2 messages Options
Reply | Threaded
Open this post in threaded view
|

[biomart-users] biomarRt

Christopher Yoon
library(biomaRt)
mart<-useMart(dataset="hsapiens_gene_ensembl",biomart="ensembl")
getBM(attributes = c("refseq_peptide", "hgnc_symbol"), filter="hgnc_symbol", values="CDK3", mart=mart)

   refseq_peptide hgnc_symbol
             NA        CDK3

According to NCBI CDK3 has a Refseq ID of NP_001249 (http://www.ncbi.nlm.nih.gov/gene/1018). I'm curious as to why this Refseq ID was not returned by biomaRt. 






It is also not returned on the query from biomart's website search. 

Please let me know why this is the case. 

Best,
Chris

--
You received this message because you are subscribed to the Google Groups "biomart-users" group.
To unsubscribe from this group and stop receiving emails from it, send an email to [hidden email].
Visit this group at http://groups.google.com/group/biomart-users.
For more options, visit https://groups.google.com/d/optout.
Reply | Threaded
Open this post in threaded view
|

Re: [biomart-users] biomarRt

Arek Kasprzyk
Hi Christopher,

please forward this email to ensembl help desk. ([hidden email]) They will be able to help you 

a.

On 15 July 2015 at 21:49, Christopher Yoon <[hidden email]> wrote:
library(biomaRt)
mart<-useMart(dataset="hsapiens_gene_ensembl",biomart="ensembl")
getBM(attributes = c("refseq_peptide", "hgnc_symbol"), filter="hgnc_symbol", values="CDK3", mart=mart)

   refseq_peptide hgnc_symbol
             NA        CDK3

According to NCBI CDK3 has a Refseq ID of NP_001249 (http://www.ncbi.nlm.nih.gov/gene/1018). I'm curious as to why this Refseq ID was not returned by biomaRt. 






It is also not returned on the query from biomart's website search. 

Please let me know why this is the case. 

Best,
Chris

--
You received this message because you are subscribed to the Google Groups "biomart-users" group.
To unsubscribe from this group and stop receiving emails from it, send an email to [hidden email].
Visit this group at http://groups.google.com/group/biomart-users.
For more options, visit https://groups.google.com/d/optout.



--


“You have enemies? Good. 
That means you've stood up for something, sometime in your life.”

― Winston Churchill

--
You received this message because you are subscribed to the Google Groups "biomart-users" group.
To unsubscribe from this group and stop receiving emails from it, send an email to [hidden email].
Visit this group at http://groups.google.com/group/biomart-users.
For more options, visit https://groups.google.com/d/optout.