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Table 3 Spearman’s correlation coefficients of gene expression levels detected with microarray and RNA-Seq

From: An investigation of biomarkers derived from legacy microarray data for their utility in the RNA-seq era

Data set Microarray RNA-Seq platform and pipeline Gene group Probes/probe sets (n) Spearman’s correlation coefficient
NCTR rat TGx Affymetrix P2 A 8,350 0.87 ± 0.02
  Rat_230_2   B 7,736 0.60 ± 0.04
    C 2,121 0.54 ± 0.04
SEQC main Affymetrix P2 A 6,355 0.84 ± 0.01
  HG_U133_Plus 2   B 27,166 0.53 ± 0.02
    C 7,636 0.33 ± 0.02
SEQC NB Agilent P2 A 10,042 0.73 ± 0.03
  customized 4 × 44 k   B 13,401 056 ± 0.04
    C 2,543 0.49 ± 0.04
SEQC rat TGx Affymetrix P1 A 7,829 0.88 ± 0.01
  Rat_230_2   B 8,376 0.63 ± 0.01
    C 95 0.64 ± 0.03
   P2 A 8,386 0.87 ± 0.01
    B 8,035 0.68 ± 0.01
    C 3,149 0.58 ± 0.01
   P3 A 8,201 0.89 ± 0.01
    B 8,142 0.69 ± 0.01
    C 702 0.73 ± 0.01
   P4 A 8,080 0.88 ± 0.01
    B 8,160 0.67 ± 0.01
    C 91 0.64 ± 0.04
   P5 A 8,197 0.85 ± 0.01
    B 7,543 0.66 ± 0.01
    C 1,750 0.32 ± 0.01
   P6 A 5,663 0.90 ± 0.01
    B 12,228 0.59 ± 0.01
    C 3,189 0.38 ± 0.02
TCCGA ALM Affymetrix Bwa + In A 7,448 0.82 ± 0.04
  HG_U133_Plus 2 House B 31,313 0.66 ± 0.04
   Program C 551 0.57 ± 0.04