Table 2 The differences between microarray platforms used in the project ( source: Affymetrix and Agilent data sheets )
From: MMpred: functional miRNA – mRNA interaction analyses by miRNA expression prediction
Affymetrix human genome U133 Plus 2.0 | Affymetrix human Exon1.0 ST | Agilent human miRNA Microarray 2.0 | |
|---|---|---|---|
Total features per array | ~ 1 million | > 5.5 million | ~ 15,000 |
Probe sets | >54,000 | 1.4 million | 821 |
Exon clusters / Transcripts / miRNAs | ~47,400 | >1 million | 723 human + 76 viral |
Oligonucleotide probe length | 25-mer | 25-mer | ~ 40–60 nucleotides |
Resolution | 11 pairs/transcript, 16.1 /gene | 5.8 /exon, 44.8 /gene | 20–40 /sequence |
Feature size | 11 μm | 5 μm | 65 μm |