Tweet
I have downloaded some CEL files from GEO, and wish to annotate probe id's with AILUN. Can someone advise me about the most time-efficient way of extracting the probe id's from the CEL files? Is there for example some grep command that could do the job? I'm unfortunately not familiar enough with UNIX to figure this out..
-
-
Extracting probe id's
I assume that if you have .CEL files the data is from Affymetrix arrays.
Have a look at the Affymetrix website
as well as the Bioconductor website and mailing lists.
Affymetrix usually releases annotations for their arrays. Even if you want to do your own annotations, the Affymetrix files are csv text files, which you can open in Excel, and the first column in the files is usually the probe set identifiers.Last edited by mastal; 07-14-2013, 11:55 AM. -
Thanks! Will look into this.Comment
-
Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
...07-09-2026, 11:10 AM -
Cancer survival rates have significantly increased in the last few decades in the United States, reaching a combined 70% 5-year survival rate by 2021. Behind this number, there are years of research to find new therapies, drug targets, and early detection methods. But there is one core challenge that keeps slowing down these advances, and it’s about drug resistance.
There is no single reason why many patients don’t respond to treatment as expected. Cancer is...07-08-2026, 05:17 AM -
Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.07-01-2026, 11:43 AM
Comment