finding isomiR annotation for TCGA data using API (Python)
0
0
Entering edit mode
3.4 years ago
adeline • 0

Hello, I'm working with the isomiR data from the TCGA database. In this dataset, I have the ref miRNA_ID eg (hsa-let-7a-1) and isoform genomic coordinate eg (hg38:chr9:94175942-94175962:+).

I'm trying to get the specific isomiR ID for each coordinate/sequence. I have already retrieved the sequence from Rest Ensembl using the genomic coordinate as query.

Now I'm looking for the isomiR ID that looks something like this: hsa-miR-145-5p.iso.t5:0.a5:0

Could anyone please suggest tools I could try? Preferably Python as I'm trying to perform this within my script.

python tcga isomiR annotation • 496 views
ADD COMMENT

Login before adding your answer.

Traffic: 1964 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6