I'm working with gene expression data, and one thing that I notice is that some of the genes are repeated. For example, GSE12051 has the gene "ABL1" twice.
Why is this? If I wanted to know the gene expression of "ABL1" should I be taking the arithmetic mean of the two measurements?
•
written
by
chengzhao41
1 answer
As Ashutosh mentioned, there can be multiple probesets for the same gene (probably designed to target different isoforms).
Unless they are technical replicates on a custom cDNA array, I wouldn't normally try to combine different probesets. I would typically consider differential expression of a single probe sufficient to define the gene as differentially expressed (and focus validation on region targeted by that probeset, if different probesets provide very different results).
•
written
by
Charles Warden
Log in to answer this question.
-
Where is clonotypes .csv file
written by yueli7
-
Multiplatform batch correction using combat
written by Devyani •
-
Map from GEO samples' name to TCGA name
written by landscape95
-
what is difference between HG-U133A and HG-U133B array ? which one to use ?
written by aaponcseku •
-
Microarray analyis of different platform (GPL96 vs. GPL3921)
written by Bioinformatist Newbie
-
Finding The Relation Between Gene Expression And Protein Function
written by mtyler.jason •
-
Dataset Search: Rna-Seq And Affymetrix Hugene Arrays
written by polarise
-
Normal Size Raw Data To Research, Cant Download Petabyte Of Zillion Reads
written by smagikern •
-
Where To Find Rnas Used In Gene Expression Studies?
written by Click downvote
-
Download Geo Tar File Automatically From Linux/Unix
written by dfernan
This is a microarray data. In microarray, a gene can be represented by more than one probe/probeset. As a result, you see different expression values corresponding to different probes. You will have to be careful as different probes can represent different transcripts/isoforms or same transcripts.