Entering edit mode
9.3 years ago
Pia
•
0
Hi,
I was wondering if you are aware of a way of finding reference genes for a given cancer gene. I have heard about grNorm algorithm but if I am not mistaken 9I am new to the field!) I believe this apply more to gene expression than to genotyping!
Any help is more than welcome!!!
Thank you in advance for your help!
I suppose it depends on what you mean by "reference gene". If you mean a reference sequence to compare against for SNP detection, then just download the sequence from NCBI, UCSC, or Ensembl.
Hi!
Thank you for getting in touch with me (and sorry for my late reply, I am still a baby here so I have just noticed your msg!!)...
By "reference gene" I mean single copy reference genes that I can use to run together with my the genes I am interested in (Jak2, KRAS) as control gene.
In the literature I have found many papers but although they call them "reference genes" I believe they are "housekeeping" genes!
Basically I want something that works at DNA level...
For Jak2, I have found a paper in which cyclophilinA and ALB are used but I was wondering if there is a data base that can help me to find something else...
Any idea is more than welcome!!
Thank you in advance for your help!
Ah, so you're not interested in SNPs but in CNVs. I've updated your post's title and tags to indicate that.
Thanks! :-) ps : any idea???
It's not something I've thought enough about. My guess would be that someone has looked at what genes are frequently affected and that people just avoid those (otherwise, any gene should suffice in theory). This is actually much easier if you have sequencing data, since you then don't need to pick a single gene :)