Table 1 Data sets used in this study
From: Blood-based identification of non-responders to anti-TNF therapy in rheumatoid arthritis
Data set | Use in this study | Microarray platform | Blood sample | Treatment | Co- Therapies | Previous Treatment with Biologics | Response Criteria (Time after Treatment) | Patient breakdown |
|---|---|---|---|---|---|---|---|---|
GSE12051 [10] | Classifier training | Sentrix Human-6 Expression BeadChip | Whole blood | Infliximab | All pts: MTX, prednisone and NSAID | No anti-TNFs | EULAR DAS28 poor: NR | 7 NR, 37 R |
EULAR DAS28 moderate/good: R (14Â weeks) | ||||||||
GSE19821 [36] | Classifier training | Stanford Custom Array | Whole blood | Infliximab | All pts: MTX | No anti-TNFs | EULAR DAS28 poor: NR | 5 NR, 10 R |
Some pts: prednisone and/or NSAID | ||||||||
EULAR DAS28 moderate/good: R (16Â weeks) | ||||||||
Classifier training | Human RSTA Custom Affymetrix 2.0 | Whole blood | Infliximab | All pts: MTX | No biologics in prev. 3Â months | EULAR DAS28 poor: NR | 7 NR, 23 R | |
Some pts: prednisone, DMARDs and/or NSAIDs | EULAR DAS28 moderate/good: R (14Â weeks) | |||||||
GSE33377 [16] | Classifier training (infliximab) and evaluation (adalimumab) | Affymetrix Human Exon 1.0 ST Array | Whole blood | Infliximab or Adalimumab | All pts: MTX | No anti-TNFs | EULAR DAS28 poor: NR | Infliximab: 13 NR, 14 R |
EULAR DAS28 good: R (14Â weeks) | Adalimumab: 11 NR, 4 R | |||||||
GSE42296 [39] | Classifier evaluation | Affymetrix Human Gene 1.0 ST Array | PBMCs | Infliximab | All pts: MTX | No anti-TNFs in prev. 3Â months | ACR0/20: NR | 13 NR, 6 R |
Some pts: prednisone and/or NSAID | ACR50/70: R (14Â weeks) | |||||||
GSE3592 [8] | Classifier evaluation | INSERM Homo sapiens 14 K array_Liverpool2 | PBMCs | Infliximab | All pts: MTX and prednisone | Unknown | ΔDAS28 < 1.2: NR | 7 NR, 6 R |
Some pts: NSAIDs | ΔDAS28 ≥ 1.2: R (3 months) | |||||||
GSE25160 [40] | Classifier evaluation | Affymetrix Human Gene 1.0 ST Array | PBMCs | Tocilizumab | All pts: MTX | No anti-TNFs | ACR0/20: NR | 4 NR, 9 R |
Some pts: prednisone | ACR50/70: R (14Â weeks) | |||||||
GSE37107 [41] | Classifier evaluation | Illumina HumanHT-12 V3.0 Expression BeadChip | Whole blood | Rituximab | Some pts: prednisone, DMARDs and/or NSAIDs | Discontinued anti-TNF, at least 1 month wash out period | ΔDAS28 ≤ 1.2: NR | 6 NR, 8 R |
ΔDAS28 > 1.2: R (6 months) | ||||||||
GSE11827 [42] | Classifier evaluation | INSERM Homo sapiens 14 K array_Liverpool3 | PBMCs | Anakinra | All pts: MTX | None | ΔDAS28 < 1.2: NR | 7 NR, 7 R |
Some pts: prednisone or NSAID | ΔDAS28 ≥ 1.2: R (3 months) |