Is there any way to convert ENST to HGNC symbol?

Question

[Xiaohan Pan]

I posted a question yesterday about how to get up and downstream genes name of my siggene from cuffdiff, details → enter link description here

I followed advice and BEDops was work, but what I got is a list of ENST, like this (NR4A1|CDS:ENST00000243050.5;CDS:ENST00000293662.8;CDS:ENST00000360284.7;CDS:ENST00000394824.2;CDS:ENST00000394825.5;CDS:ENST00000545748.5;CDS:ENST00000546756.1;CDS:ENST00000546842.5;CDS:ENST00000548232.1;CDS:ENST00000548977.5;CDS:ENST00000550082.5;CDS:ENST00000550582.2;CDS:ENST00000550763.1;CDS:ENST00000552049.5;CDS:ENST00000553200.1;CDS:ENST00000562373.1;ENSG00000123358.19;ENSG00000123395.14;ENSG00000161835.10;ENSG00000259884.1;ENST00000243050.5;ENST00000293662.8;ENST00000360284.7;ENST00000394824.2;ENST00000394825.5;ENST000)
I want to know is there any way to convert ENST symbol to HGNC symbol in a huge number? Maybe rely on some R packages or Python packages?

Your suggestion will be appreciated!

[cpad0112]

try EnsDb.Hsapiens.v86 in bioconductor packages

[Xiaohan Pan]

Thank you very much!

[MS]

You should try bioMart package at R.

[MEHAR ALI RAZA]

best choice is to try EnsDb.Hsapiens.v86 in bioconductor packages

Answer 1

[Jean-Karim Heriche]

Use EnsEMBL's BioMart or EnsEMBL's API. If you want to use R, there's the biomaRt Bioconductor package.

Answer 2

[GenoMax]

Have you looked at BioMart at Ensembl?

[Xiaohan Pan]

I'll try, thanks so much