Skip to main content

Advertisement

Table 6 Top ten up- and down- regulated known isoforms expressed in rheumatoid arthritis synovial RNA

From: RNA-seq analysis of synovial fibroblasts brings new insights into rheumatoid arthritis

Gene Description Locus Length RA1FPKM RA2FPKM WT1FPKM WT2FPKM Avg.RA Avg.WT Fold change Ensembl geneID
IL26 interleukin 26 chr12 1047.00 17.91 1.93 0.10 0.14 9.92 0.12 80.83 ENSG00000111536
GCNT1 glucosaminyl (N-acetyl) transferase 1, core 2 chr9 5478.00 3.99 3.35 0.08 0.05 3.67 0.07 55.82 ENSG00000187210
IFI27 interferon, alpha-inducible protein 27 chr14 652.00 272.04 223.93 5.09 8.77 247.99 6.93 35.79 ENSG00000165949
GCNT1 glucosaminyl (N-acetyl) transferase 1, core 2 chr9 5596.00 3.81 2.20 0.06 0.13 3.01 0.09 32.54 ENSG00000187210
IGFBP3 insulin-like growth factor binding protein 3 chr7 2631.00 123.09 213.34 2.30 8.88 168.22 5.59 30.09 ENSG00000146674
DHPS deoxyhypusine synthase chr19 1184.00 12.04 2.92 0.40 0.14 7.48 0.27 27.42 ENSG00000095059
BLCAP bladder cancer associated protein chr20 2073.00 9.25 2.16 0.20 0.32 5.70 0.26 22.14 ENSG00000166619
SLC2A5 solute carrier family 2 (facilitated glucose/fructose transporter), member 5 chr1 2438.00 62.93 20.78 0.21 3.63 41.85 1.92 21.79 ENSG00000142583
SLC12A8 solute carrier family 12 (potassium/chloride transporters), member 8 chr3 3447.00 6.34 16.64 0.32 0.73 11.49 0.52 22.01 ENSG00000221955
LYNX1 Ly6/neurotoxin 1 chr8 1290.00 6.07 3.23 0.39 0.06 4.65 0.23 20.48 ENSG00000180155
C5orf13 chromosome 5 open reading frame 13 chr5 1996.00 0.32 0.71 303.46 6.35 0.52 154.91 −300.00 ENSG00000134986
IFI27 interferon, alpha-inducible protein 27 chr14 648.00 0.40 1.10 5.62 318.85 0.75 162.23 −216.80 ENSG00000165949
C5orf13 chromosome 5 open reading frame 13 chr5 2068.00 0.14 0.19 40.42 1.50 0.16 20.96 −127.90 ENSG00000134986
APLP2 amyloid beta (A4) precursor-like protein 2 chr11 3274.00 0.06 0.23 5.27 15.27 0.14 10.27 −71.07 ENSG00000084234
CSRP1 cysteine and glycine-rich protein 1 chr1 1938.00 0.20 0.41 34.33 3.74 0.31 19.03 −61.54 ENSG00000159176
AQP1 aquaporin 1 chr7 2807.00 4.71 2.55 390.29 23.23 3.63 206.76 −56.95 ENSG00000240583
PARP2 poly (ADP-ribose) polymerase 2 chr14 1887.00 0.10 0.19 2.43 6.85 0.14 4.64 −32.85 ENSG00000129484
APOBEC3B apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3B chr22 1536.00 0.08 0.26 2.60 7.41 0.17 5.00 −29.50 ENSG00000179750
CCDC3 coiled-coil domain containing 3 chr10 2738.00 0.12 0.10 4.49 1.71 0.11 3.10 −27.21 ENSG00000151468
MTIF3 mitochondrial translational initiation factor 3 chr13 1098.00 0.14 0.22 3.98 5.73 0.18 4.85 −26.92 ENSG00000122033
  1. Isoforms which were differentially expressed as determined by Cufflinks, after normalization to a panel of housekeeping genes. The fold change is the ratio of RASF FPKM to control FPKM. Isoforms with a fold change of 1.2-fold or greater were defined as significant. The isoforms were ranked on their fold change and the 10 with the highest or lowest fold changes are listed here.