Table 3 Top ten up- and down- regulated genes expressed only in normal synovial RNA or only in rheumatoid arthritis synovial RNA
From: RNA-seq analysis of synovial fibroblasts brings new insights into rheumatoid arthritis
Gene | Description | Chr | RA FPKM | RA2 FPKM | WT1 FPKM | WT2 FPKM | Avg.RA | Avg.WT | Ensembl gene ID |
|---|---|---|---|---|---|---|---|---|---|
HLA-B | Major histocompatibility complex, class 1, B | chr6 | 704.3 | 728.3 | -- | -- | 716.3 | -- | ENSG00000228964 |
HLA-A | Major histocompatibility complex, class 1, A | chr6 | 778.2 | 585.6 | -- | -- | 681.9 | -- | ENSG00000223980 |
HLA-C | Major histocompatibility complex, class 1, C | chr6 | 534.8 | 452.1 | -- | -- | 493.5 | -- | ENSG00000206435 |
TUBB | Tubulin, beta class I | chr6 | 405.3 | 416.7 | -- | -- | 411 | -- | ENSG00000232421 |
CLIC1 | Chloride intracellular channel 1 | chr6 | 350.5 | 369.6 | -- | -- | 360 | -- | ENSG00000223639 |
RPS18 | Ribosomal Protein S18 | chr6 | 260.4 | 269.1 | -- | -- | 264.8 | -- | ENSG00000227794 |
HLA-E | Major histocompatibility complex, class 1, E | chr6 | 243.5 | 260.2 | -- | -- | 251.9 | -- | ENSG00000230254 |
C6orf48 | Chromosome 6 open reading frame 48 | chr6 | 119.5 | 225.8 | -- | -- | 172.6 | -- | ENSG00000206380 |
SCARA5 | Scavenger receptor class A, member 5 | chr8 | 11.36 | 316 | -- | -- | 163.7 | -- | ENSG00000168079 |
CUTA | CutA divalent cation tolerance homolog | chr6 | 168.7 | 133.7 | -- | -- | 151.2 | -- | ENSG00000226492 |
ACTG2 | Actin, gamma 2, smooth muscle, enteric | chr2 | -- | -- | 1087.76 | 2.58 | -- | 545.17 | ENSG00000163017 |
RPS24 | Ribosomal Protein S24 | chr10 | -- | -- | 407.72 | 429.08 | -- | 418.40 | ENSG00000138326 |
PSAP | Prosaposin | chr10 | -- | -- | 236.86 | 519.83 | -- | 378.35 | ENSG00000197746 |
HMGA1 | High mobility group box 1 | chr6: | -- | -- | 139.35 | 265.81 | -- | 202.58 | ENSG00000189403 |
CD59 | CD59 molecule, complement regulatory protein | chr11 | -- | -- | 111.47 | 149.28 | -- | 130.38 | ENSG00000085063 |
LRRC59 | Leucine rich repeat containing 59 | chr17 | -- | -- | 116.95 | 88.57 | -- | 102.76 | ENSG00000108829 |
PPP1R14A | Protein phosphatase 1, regulatory (inhibitor) subunit 14A | chr19 | -- | -- | 142.49 | 1.10 | -- | 71.79 | ENSG00000167641 |
LTBP1 | Latent transforming growth factor beta binding protein 1 | chr2 | -- | -- | 54.38 | 66.08 | -- | 60.23 | ENSG00000049323 |
SNHG6 | Small nucleolar RNA host gene 6 | chr8 | -- | -- | 46.68 | 65.62 | -- | 56.15 | ENSG00000245910 |
HNRNPC | Heterogeneous nuclear ribonucleoprotein C (C1/C2) | chr14 | -- | -- | 52.08 | 58.46 | -- | 55.27 | ENSG00000092199 |