In our trends section, we show a list of GEO platforms used by researchers most often. The list is self-generated by a script and counts the number of submitted experiments (GSE) for each platform (GPL).
When we first generated the table one year back, we annotated the top GPLs with descriptive tags such as ‘Affy mouse’, ‘Agilent human’ to assist readers. The annotations were not updated since then, and therefore the GPLs without the tags in the above figure are new entries to the top rank. They are descriptive of new interests transcriptomics researchers developed over the last year or so. Let us go through them one by one.
GPL9309: Illumina Genome Analyzer (Caenorhabditis elegans)
high-throughput sequencing NCBI GEO
GPL2025: [Rice] Affymetrix Rice Genome Array
- in situ oligonucleotide NCBI GEO
1. Illumina bead chips are getting very popular among researchers. The pace of growth is even faster than high-throughput sequencing.
2. This is the first time a methylation-array joined the rank of highly used transriptomics platforms. It suggests that the researchers are now venturing out of traditional stronghold of expression arrays to other areas.
3. The set used to be dominated by human, mouse and other model organisms, but this is the first time two new organisms - pork and rice - entered the fray. They are the results of globalization in transcriptional research.