Fig. 1

Heatmaps illustrating supervised hierarchical clustering analysis of the probe sets differentially expressed in PBMC (a) and Neutrophils (b) from sJIA patients before and after tocilizumab treatment (3 sJIA patients for PBMC samples and 4 sJIA patients for neutrophils). The differential expression of any probe set for a given gene was used as a surrogate for differential gene expression. Samples were collected at time points zero, and 3 months post treatment. All were responders with ACR90 (Table 1). Clustering analysis was performed in GeneSpring (GX11) as described in Methods. Normalized expression is colour coded in which red is high and blue is low relative to the median of the ‘before’ treatment samples. In the heatmaps, each column represents a sample and each row represents a gene. Full list of all genes in clusters are available in Additional files 1 and 2. However, listed below are genes with fold change (FC) ≥3 found within the clusters in the order of decreasing FC values. A cluster 1: Genes with significant decrease (FC ≥ 3 fold) after treatment with tocilizumab in PBMC: FCGR3B, KCNJ15, CHI3L1, ADM, PROS1, SOCS3, CHI3L1, and NRG1. A cluster 2: there were genes with increased expression on the heatmap but these were all less than 3 fold change. B cluster 1: Genes with significant decrease (FC ≥ 3 fold) after treatment with tocilizumab in neutrophils: ARHGAP24, CLEC5A, TAF8. B cluster 2: Genes with significant increase (FC ≥ 3 fold) after treatment with tocilizumab in neutrophils: CD3D, LOC129293, AQP3, LAT, LY9, HLA-DPB1, TRA@, GFI1B, BCL11B, PASK, POLR3E, DOK2, AFG3L2, MEX3C, PASK, ENTPD6, KIAA0114, FAM102A, RCAN3, ATXN10, TNFAIP8L1, ABHD14B, RPL10A, GPR44, ATP6V0E2, ADARB1, APEX1, C17orf61, KLHL3, MRPS24, POU6F1, LDLRAP1, NDUFB2, SLC25A38, UBQLN4, KLF10, C22orf32, AKR1B1, PPP3CC, GSS, CAMK1, EIF3C, EEF2K, ILF3, RPL13, SLC25A6, THEM4, RPL13A, RDH14, KCTD15, DNMT1, TTC4, KIAA0748, AKR7A2, PLSCR3, ZNF639, KIAA1024, UNC84A, IARS, C11orf31, PVT1, DNPEP, LOC202781, LAGE3, NHP2, LSG1, SIRPG, SLC35B2, EEF2K, AES, TMEM14A, PAN2, DDX39, NOC4L, CAMSAP1, LOC100131731, BHLHE40, ECHS1, CLNS1A, CPSF1, LOC93622, TOMM5, COX6C, NLRC3, EIF3B, CIRH1A, OLIG1, ZBTB40